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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SYNCRIP Gene

protein-coding   GIFtS: 54
GCID: GC06M086317

Synaptotagmin Binding, Cytoplasmic RNA Interacting Protein

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Synaptotagmin Binding, Cytoplasmic RNA Interacting Protein1 2     HNRNPQ2
Heterogeneous Nuclear Ribonucleoprotein Q1 2     HNRPQ12
Glycine- And Tyrosine-Rich RNA-Binding Protein2 3     PP682
GRY-RBP2 3     hnRNP-Q2
NSAP12 3     HNRPQ3
NS1-Associated Protein 12 3     HnRNP Q3
GRYRBP2     Synaptotagmin-Binding, Cytoplasmic RNA-Interacting Protein3

External Ids:    HGNC: 169181   Entrez Gene: 104922   Ensembl: ENSG000001353167   UniProtKB: O605063   

Export aliases for SYNCRIP gene to outside databases

Previous GC identifers: GC06M086318 GC06M086377 GC06M086380 GC06M083541 GC06M086267


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SYNCRIP Gene:
This gene encodes a member of the cellular heterogeneous nuclear ribonucleoprotein (hnRNP) family. hnRNPs are RNA
binding proteins that complex with heterogeneous nuclear RNA (hnRNA) and regulate alternative splicing,
polyadenylation, and other aspects of mRNA metabolism and transport. The encoded protein plays a role in multiple
aspects of mRNA maturation and is associated with several multiprotein complexes including the apoB RNA
editing-complex and survival of motor neurons (SMN) complex. Alternatively spliced transcript variants encoding
multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the short arm of
chromosome 20. (provided by RefSeq, Dec 2011)

GeneCards Summary for SYNCRIP Gene: 
SYNCRIP (synaptotagmin binding, cytoplasmic RNA interacting protein) is a protein-coding gene. Diseases associated with SYNCRIP include spinal muscular atrophy, and muscular atrophy. GO annotations related to this gene include RNA binding and poly(A) RNA binding. An important paralog of this gene is RBM47.

UniProtKB/Swiss-Prot: HNRPQ_HUMAN, O60506
Function: Heterogenous nuclear ribonucleoprotein (hnRNP) implicated in mRNA processing mechanisms. Component of
the CRD-mediated complex that promotes MYC mRNA stability. Isoform 1, isoform 2 and isoform 3 are associated in
vitro with pre-mRNA, splicing intermediates and mature mRNA protein complexes. Isoform 1 binds to apoB mRNA
AU-rich sequences. Isoform 1 is part of the APOB mRNA editosome complex and may modulate the postranscriptional C
to U RNA-editing of the APOB mRNA through either by binding to A1CF (APOBEC1 complementation factor), to APOBEC1
or to RNA itself. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding
proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major
coding-region determinant of instability (mCRD) domain. Interacts in vitro preferentially with poly(A) and
poly(U) RNA sequences. Isoform 3 may be involved in cytoplasmic vesicle-based mRNA transport through interaction
with synaptotagmins. Component of the GAIT (gamma interferon-activated inhibitor of translation) complex which
mediates interferon-gamma-induced transcript-selective translation inhibition in inflammation processes. Upon
interferon-gamma activation assembles into the GAIT complex which binds to stem loop-containing GAIT elements in
the 3'-UTR of diverse inflammatory mRNAs (such as ceruplasmin) and suppresses their translation; seems not to be
essential for GAIT complex function

Gene Wiki entry for SYNCRIP Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NT_007299.13  NC_018917.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SYNCRIP gene promoter:
         AhR   SRF   Sp1   Egr-1   SRF (504 AA)   HNF-4alpha2   Nkx2-5   Arnt   HNF-4alpha1   Egr-4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSYNCRIP promoter sequence
   Search SABiosciences Chromatin IP Primers for SYNCRIP

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYNCRIP


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6q14-q15   Ensembl cytogenetic band:  6q14.3   HGNC cytogenetic band: 6q14-q15

SYNCRIP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYNCRIP gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M086317:  view genomic region     (about GC identifiers)

Start:
86,317,502 bp from pter      End:
86,353,510 bp from pter
Size:
36,009 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: HNRPQ_HUMAN, O60506 (See protein sequence)
Recommended Name: Heterogeneous nuclear ribonucleoprotein Q  
Size: 623 amino acids; 69603 Da
Subunit: Isoform 1 is a component of the APOB mRNA editosome complex and interacts with APOBEC1 and A1CF (APOBEC1
complementation factor). Part of a complex associated with the FOS mCRD domain and consisting of PABPC1, PAIP1,
CSDE1/UNR, HNRPD and SYNCRIP. Isoform 3 interacts with HNRPR. Interacts with POLR2A hyperphosphorylated
C-terminal domain. Interacts with minute virus of mice (MVM) NS1 protein. Isoform 1, isoform 2 and isoform 3
interact with SMN. Isoform 3 interacts through its C-terminal domain with SYT7, SYT8 and SYT9 (By similarity).
The non-phosphorylated and phosphorylated forms are colocalized with PAIP1 in polysomes (By similarity).
Identified in a histone pre-mRNA complex, at least composed of ERI1, LSM11, SLBP, SNRPB, SYNCRIP and YBX1 (By
similarity). Identified in the spliceosome C complex. Component of the coding region determinant (CRD)-mediated
complex, composed of DHX9, HNRNPU, IGF2BP1, SYNCRIP and YBX1. Identified in a mRNP complex, at least composed of
DHX9, DDX3X, ELAVL1, HNRNPU, IGF2BP1, ILF3, PABPC1, PCBP2, PTBP2, STAU1, STAU2, SYNCRIP and YBX1. Identified in a
mRNP granule complex, at least composed of ACTB, ACTN4, DHX9, ERG, HNRNPA1, HNRNPA2B1, HNRNPAB, HNRNPD, HNRNPL,
HNRNPR, HNRNPU, HSPA1, HSPA8, IGF2BP1, ILF2, ILF3, NCBP1, NCL, PABPC1, PABPC4, PABPN1, RPLP0, RPS3, RPS3A, RPS4X,
RPS8, RPS9, SYNCRIP, TROVE2, YBX1 and untranslated mRNAs. Interacts with GTPBP1. Component of the GAIT complex;
in humans the complex assembly seems to be a two-step process in which EPRS first associates with SYNCRIP to form
a pre-GAIT complex which is deficient in GAIT element binding
Subcellular location: Cytoplasm. Microsome (By similarity). Endoplasmic reticulum (By similarity). Nucleus (By
similarity). Note=The tyrosine phosphorylated form bound to RNA is found in microsomes (By similarity). Localized
in cytoplasmic mRNP granules containing untranslated mRNAs
Subcellular location: Isoform 1: Nucleus, nucleoplasm (By similarity). Note=Expressed predominantly in the
nucleoplasm (By similarity)
Subcellular location: Isoform 2: Nucleus, nucleoplasm (By similarity). Note=Expressed predominantly in the
nucleoplasm (By similarity)
Subcellular location: Isoform 3: Nucleus, nucleoplasm (By similarity). Note=Expressed predominantly in the
nucleoplasm (By similarity)
Sequence caution: Sequence=AAH15575.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential
poly-A sequence starting in position 413;
1 PDB 3D structure from and Proteopedia for SYNCRIP:
2DGU (3D)    
Secondary accessions: E1P501 E1P502 Q53H05 Q5TCG2 Q5TCG3 Q8IW78 Q8N599 Q96LC1 Q96LC2 Q9Y583
Alternative splicing: 5 isoforms:  O60506-1   O60506-2   O60506-3   O60506-4   O60506-5   (May be due to a competing donor splice site and to an exon inclusion)

Explore the universe of human proteins at neXtProt for SYNCRIP: NX_O60506

Explore proteomics data for SYNCRIP at MOPED 

Post-translational modifications:

  • UniProtKB: Phosphorylated on tyrosine. The membrane-bound form found in microsomes is phosphorylated in vitro by insulin
    receptor tyrosine kinase (INSR). Phosphorylation is inhibited upon binding to RNA, whereas the cytoplasmic form
    is poorly phosphorylated (By similarity)
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O60506

  • SYNCRIP Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SYNCRIP Protein Expression
    REFSEQ proteins (7 alternative transcripts): 
    NP_001153145.1  NP_001153146.1  NP_001153147.1  NP_001153148.1  NP_001153149.1  NP_001240700.1  NP_006363.4  

    ENSEMBL proteins: 
     ENSP00000347380   ENSP00000358635   ENSP00000397782  

    Human Recombinant Protein Products for SYNCRIP: 
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    Novus Biologicals SYNCRIP Proteins
    Novus Biologicals SYNCRIP Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SYNCRIP 

    Gene Ontology (GO): 5/8 cellular component terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus TAS9847309
    GO:0005654nucleoplasm IEA--
    GO:0005737cytoplasm ----
    GO:0005783endoplasmic reticulum IEA--
    GO:0030529ribonucleoprotein complex IDA15479637

    SYNCRIP for ontologies           About GeneDecksing



    SYNCRIP Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of SYNCRIP
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    Cell Signaling Technology (CST) Antibodies for SYNCRIP  (NSAP1)
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    Novus Biologicals SYNCRIP Antibodies
    Abcam antibodies for SYNCRIP
    Cloud-Clone Corp. Antibodies for SYNCRIP 
    ThermoFisher Antibodies for SYNCRIP
    LSBio Antibodies in human, mouse, rat for SYNCRIP 

    Assay Products for SYNCRIP: 
    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for SYNCRIP
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for SYNCRIP 
    Cloud-Clone Corp. CLIAs for SYNCRIP


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    RBM: RNA binding motif (RRM) containing

    3 InterPro protein domains:
     IPR006535 HnRNP_R/Q_splicing_fac
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry O60506

    ProtoNet protein and cluster: O60506

    UniProtKB/Swiss-Prot: HNRPQ_HUMAN, O60506
    Domain: The domain containing eight Arg-Gly-Gly repeats (RGG/RXR-box) may be involved in RNA-binding and
    protein-protein interactions. It is methylated by PRMT1, and essential for nuclear localization
    Similarity: Contains 3 RRM (RNA recognition motif) domains


    SYNCRIP for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HNRPQ_HUMAN, O60506
    Function: Heterogenous nuclear ribonucleoprotein (hnRNP) implicated in mRNA processing mechanisms. Component of
    the CRD-mediated complex that promotes MYC mRNA stability. Isoform 1, isoform 2 and isoform 3 are associated in
    vitro with pre-mRNA, splicing intermediates and mature mRNA protein complexes. Isoform 1 binds to apoB mRNA
    AU-rich sequences. Isoform 1 is part of the APOB mRNA editosome complex and may modulate the postranscriptional C
    to U RNA-editing of the APOB mRNA through either by binding to A1CF (APOBEC1 complementation factor), to APOBEC1
    or to RNA itself. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding
    proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major
    coding-region determinant of instability (mCRD) domain. Interacts in vitro preferentially with poly(A) and
    poly(U) RNA sequences. Isoform 3 may be involved in cytoplasmic vesicle-based mRNA transport through interaction
    with synaptotagmins. Component of the GAIT (gamma interferon-activated inhibitor of translation) complex which
    mediates interferon-gamma-induced transcript-selective translation inhibition in inflammation processes. Upon
    interferon-gamma activation assembles into the GAIT complex which binds to stem loop-containing GAIT elements in
    the 3'-UTR of diverse inflammatory mRNAs (such as ceruplasmin) and suppresses their translation; seems not to be
    essential for GAIT complex function

         Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding TAS9847309
    GO:0005515protein binding IPI12674497
    GO:0008143poly(A) RNA binding IEA--
         
    SYNCRIP for ontologies           About GeneDecksing


    Phenotypes:
         4 GenomeRNAi human phenotypes for SYNCRIP:
     Decreased NANOG protein expres  Decreased OCT4 protein express  Decreased POU5F1-GFP protein e  Decreased viability with pacli 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for SYNCRIP 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SYNCRIP

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SYNCRIP 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SYNCRIP 

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SYNCRIP
    8/212 QIAGEN miScript miRNA Assays for microRNAs that regulate SYNCRIP (see all 212):
    hsa-miR-361-5p hsa-miR-106a hsa-miR-3622b-3p hsa-miR-508-5p hsa-miR-200b hsa-miR-642b hsa-miR-130b hsa-miR-509-3-5p
    SwitchGear 3'UTR luciferase reporter plasmidSYNCRIP 3' UTR sequence
    Inhib. RNA
    Products:
        
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    Gene Editing
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    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 6): SYNCRIP (NM_001159676)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SYNCRIP
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                         Customized lentivirus expression plasmids for stable overexpression of SYNCRIP 

    Cell Line
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYNCRIP


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for SYNCRIP About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Translational Control
    Translational Control

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for SYNCRIP
        Translational Control



    SYNCRIP for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SYNCRIP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/801 Interacting proteins for SYNCRIP (O605061, 2, 3 ENSP000003586354) via UniProtKB, MINT, STRING, and/or I2D (see all 801)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HNRNPDQ14103-41, ENSP000003131994EBI-1024357,EBI-432545 MINT-7945693 I2D: score=2 STRING: ENSP00000313199
    SMN2Q166372, 3, ENSP000003701194MINT-7945693 I2D: score=1 STRING: ENSP00000370119
    HNRNPH1P319432, 3, ENSP000003491684MINT-7945693 I2D: score=1 STRING: ENSP00000349168
    SF3A2Q154282, 3, ENSP000002214944MINT-5205863 I2D: score=1 STRING: ENSP00000221494
    SMN1Q166372, 3MINT-7945693 I2D: score=1 
    About this table

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000398mRNA splicing, via spliceosome IC11991638
    GO:0006396RNA processing TAS9847309
    GO:0008380RNA splicing TAS9847309
    GO:0017148negative regulation of translation IMP15479637
    GO:0019048modulation by virus of host morphology or physiology IEA--

    SYNCRIP for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SYNCRIP (HNRPQ)

    Search CenterWatch for drugs/clinical trials and news about SYNCRIP / HNRPQ

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SYNCRIP gene (7 alternative transcripts): 
    NM_001159673.1  NM_001159674.1  NM_001159675.1  NM_001159676.1  NM_001159677.1  NM_001253771.1  NM_006372.4  

    Unigene Cluster for SYNCRIP:

    Synaptotagmin binding, cytoplasmic RNA interacting protein
    Hs.571177  [show with all ESTs]
    Unigene Representative Sequence: NM_001159677
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000355238(uc003pku.3 uc003pkv.3 uc003pkw.3 uc003pkx.3 uc003pky.3)
    ENST00000369622(uc003pkz.2 uc003pla.2) ENST00000444272
    miRNA
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    8/212 QIAGEN miScript miRNA Assays for microRNAs that regulate SYNCRIP (see all 212):
    hsa-miR-361-5p hsa-miR-106a hsa-miR-3622b-3p hsa-miR-508-5p hsa-miR-200b hsa-miR-642b hsa-miR-130b hsa-miR-509-3-5p
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    Additional mRNA sequence: 

    AB209098.1 AF037448.1 AF155568.1 AK056188.1 AK222776.1 AK294212.1 AK299796.1 AK313572.1 
    AY034481.1 AY034482.1 AY034483.1 BC009176.2 BC015575.2 BC021932.1 BC024283.1 BC032643.1 
    BC040844.1 

    24/30 DOTS entries (see all 30):

    DT.100874783  DT.100046070  DT.455852  DT.91776556  DT.100874784  DT.91950888  DT.95264437  DT.86854256 
    DT.100874788  DT.99982340  DT.100840959  DT.100046084  DT.97860332  DT.121330193  DT.100668409  DT.120798424 
    DT.91776560  DT.121330146  DT.120834968  DT.121330084  DT.100041401  DT.100874798  DT.121330247  DT.91951355 

    24/467 AceView cDNA sequences (see all 467):

    AA625241 BQ422329 BI439164 CR605141 BE745818 BF062305 BC032643 BG573117 
    BQ231367 BG026689 AL701923 AI224391 AI589164 BM972247 AI280879 BE792255 
    BG390735 BM543159 AW149014 D61320 BG547215 AW025846 AW957704 AI089556 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for SYNCRIP (see all 12)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c · 2d · 2e ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b · 8c ^ 9a · 9b ^ 10 ^ 11 ^
    SP1:                                                                                                                                                            
    SP2:                                                                                                                                            -               
    SP3:                    -     -     -     -     -                                                                                                               
    SP4:                                                  -     -                                               -                                                   
    SP5:                                                  -     -                                                                                                   

    ExUns: 12a · 12b ^ 13a · 13b ^ 14a · 14b
    SP1:                                    
    SP2:                                    
    SP3:                                    
    SP4:                                    
    SP5:                                    


    ECgene alternative splicing isoforms for SYNCRIP

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SYNCRIP expression in normal human tissues (normalized intensities)      SYNCRIP embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCAAACAATC
    SYNCRIP Expression
    About this image


    SYNCRIP expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/51 selected tissues (see all 51) fully expand
     
     Brain (Nervous System)    fully expand to see all 12 entries
             Thalamus
             brain/midbrain   
     
     Epithelium
             vagina ; squamous epithelial cells   
     
     Uterus
             uterus, post-menopause ; glandular cells   
     
     Heart (Cardiovascular System)    fully expand to see all 4 entries
             heart muscle ; myocytes   
             heart/atrium   
     
     Lung (Respiratory System)    fully expand to see all 4 entries
             Trachea
             lung ; pneumocytes   

    See SYNCRIP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SYNCRIP

    SOURCE GeneReport for Unigene cluster: Hs.571177

    UniProtKB/Swiss-Prot: HNRPQ_HUMAN, O60506
    Tissue specificity: Ubiquitously expressed. Detected in heart, brain, pancreas, placenta, spleen, lung, liver,
    skeletal muscle, kidney, thymus, prostate, uterus, small intestine, colon, peripheral blood and testis

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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for SYNCRIP gene from 7/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Syncrip1 , 5 synaptotagmin binding, cytoplasmic RNA interacting more1, 5 96.74(n)1
    99.68(a)1
      9 (47.24 cM)5
    564031  NM_019666.21  NP_062640.21 
     884497295 
    chicken
    (Gallus gallus)
    Aves SYNCRIP6
    synaptotagmin binding, cytoplasmic RNA interacting...
    97(a)
    1 ↔ 1
    3(76289510-76312354)
    lizard
    (Anolis carolinensis)
    Reptilia SYNCRIP6
    synaptotagmin binding, cytoplasmic RNA interacting...
    94(a)
    1 ↔ 1
    1(176809197-176831539)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.252492 Xenopus laevis transcribed sequence with moderate similarity more 87.48(n)    BJ072864.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC056750.12   -- 81.81(n)    BC056750.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG178386
    --
    44(a)
    1 → many
    3R(16582451-16631963)
    worm
    (Caenorhabditis elegans)
    Secernentea hrp-26
    Protein HRP-2, isoform a
    34(a)
    1 → many
    I(12060276-12064899)


    ENSEMBL Gene Tree for SYNCRIP (if available)
    TreeFam Gene Tree for SYNCRIP (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SYNCRIP gene
    RBM472  DND12  RBM462  A1CF2  HNRNPR2  
    8 SIMAP similar genes for SYNCRIP using alignment to 5 protein entries:     HNRPQ_HUMAN (see all proteins):
    DKFZp686A13234    HNRPR    DKFZp686O0665    HNRNPR    RBM46    A1CF
    RBM47    TIAL1

    SYNCRIP for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SYNCRIP
    PGOHUM00000247585


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/773 SNPs in SYNCRIP are shown (see all 773)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs93445391,2
    C,F,A,H--83577957(+) GGGCCG/AAGGGG 5 -- us2k1 trp34Minor allele frequency- A:0.43NA WA EA 360
    rs1871802421,2
    --86296850(+) ATAATA/TACAAG 5 -- ds50010--------
    rs1910566661,2
    --86296972(+) TTGCCC/GTTCTG 5 -- ds50010--------
    rs1821434241,2
    --86297019(+) TAAAAC/TGCCAA 5 -- ds50010--------
    rs1165471371,2
    F--86297020(+) AAAACG/ACCAAA 5 -- ds50011Minor allele frequency- A:0.01WA 118
    rs1378582751,2
    --86297061(+) ACAAGC/TTGAGT 5 -- ds50010--------
    rs1496434801,2
    C--86297131(+) ACAATC/TCATAA 5 -- ds50010--------
    rs1444147101,2
    --86297135(+) TTCATA/GAACAT 5 -- ds50010--------
    rs1483706441,2
    --86297205(+) CAAAGC/TAGAAA 5 -- ds50010--------
    rs1851760731,2
    --86297235(+) TTACAC/GTATAT 5 -- ds50010--------

    HapMap Linkage Disequilibrium report for SYNCRIP (86317502 - 86353510 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for SYNCRIP:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv5383CNV Loss18451855
    nsv886334CNV Loss21882294


    Human Gene Mutation Database (HGMD): SYNCRIP
    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    9 diseases for SYNCRIP:    About MalaCards
    spinal muscular atrophy    muscular atrophy    hepatitis c    colon cancer
    neuronitis    hepatocellular carcinoma    hepatitis    prostatitis
    breast cancer


    SYNCRIP for disorders           About GeneDecksing


    Export disorders for SYNCRIP gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SYNCRIP gene, integrated from 9 sources (see all 93):
    (articles sorted by number of sources associating them with SYNCRIP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Two-hybrid cloning identifies an RNA-binding protein, GRY-RBP, as a component of apobec-1 editosome. (PubMed id 11352648)1, 2, 3, 9 Lau P.P.... Chan L. (2001)
    2. A novel heterogeneous nuclear ribonucleoprotein-like protein interacts with NS1 of the minute virus of mice. (PubMed id 9847309)1, 2, 3, 9 Harris C.E.... Astell C.R. (1999)
    3. SMN interacts with a novel family of hnRNP and spliceosomal proteins. (PubMed id 11574476)1, 2, 9 Mourelatos Z.... Dreyfuss G. (2001)
    4. A Y2H-seq approach defines the human protein methyltransferase interactome. (PubMed id 23455924)1, 2 Weimann M.... Stelzl U. (2013)
    5. Control of c-myc mRNA stability by IGF2BP1-associated cytoplasmic RNPs. (PubMed id 19029303)1, 2 Weidensdorfer D....HA1ttelmaier S. (2009)
    6. Tryptic digestion of ubiquitin standards reveals an improved strategy for identifying ubiquitinated proteins by mass spectrometry. (PubMed id 17370265)1, 2 Denis N.J.... Figeys D. (2007)
    7. Molecular composition of IMP1 ribonucleoprotein granules. (PubMed id 17289661)1, 2 Joeson L.... Nielsen F.C. (2007)
    8. The methylation of the C-terminal region of hnRNPQ (NSAP1) is important for its nuclear localization. (PubMed id 16765914)1, 2 Passos D.O....Kobarg J. (2006)
    9. Noncanonical function of glutamyl-prolyl-tRNA synthetase: gene-specific silencing of translation. (PubMed id 15479637)1, 2 Sampath P....Fox P.L. (2004)
    10. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10492 HGNC: 16918 AceView: SYNCRIPandSNX14 Ensembl:ENSG00000135316 euGenes: HUgn10492
    ECgene: SYNCRIP H-InvDB: SYNCRIP

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SYNCRIP Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SYNCRIP gene:
    Search GeneIP for patents involving SYNCRIP

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    About This Section

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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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