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Aliases for SYNCRIP Gene

Aliases for SYNCRIP Gene

  • Synaptotagmin Binding, Cytoplasmic RNA Interacting Protein 2 3
  • Glycine- And Tyrosine-Rich RNA-Binding Protein 3 4
  • Heterogeneous Nuclear Ribonucleoprotein Q 2 3
  • NS1-Associated Protein 1 3 4
  • GRY-RBP 3 4
  • NSAP1 3 4
  • Synaptotagmin-Binding, Cytoplasmic RNA-Interacting Protein 4
  • HnRNP-Q 3
  • HnRNP Q 4
  • GRYRBP 3
  • HNRNPQ 3
  • HNRPQ1 3
  • HNRPQ 4
  • PP68 3

External Ids for SYNCRIP Gene

Summaries for SYNCRIP Gene

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. Among its related pathways are Translational Control. GO annotations related to this gene include RNA binding and poly(A) binding. An important paralog of this gene is HNRNPR.

UniProtKB/Swiss-Prot for SYNCRIP Gene

  • 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

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYNCRIP Gene

Genomics for SYNCRIP Gene

Genomic Location for SYNCRIP Gene

Start:
85,607,784 bp from pter
End:
85,643,850 bp from pter
Size:
36,067 bases
Orientation:
Minus strand

Genomic View for SYNCRIP Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SYNCRIP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNCRIP Gene

Regulatory Elements for SYNCRIP Gene

Proteins for SYNCRIP Gene

  • Protein details for SYNCRIP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60506-HNRPQ_HUMAN
    Recommended name:
    Heterogeneous nuclear ribonucleoprotein Q
    Protein Accession:
    O60506
    Secondary Accessions:
    • E1P501
    • E1P502
    • Q53H05
    • Q5TCG2
    • Q5TCG3
    • Q8IW78
    • Q8N599
    • Q96LC1
    • Q96LC2
    • Q9Y583

    Protein attributes for SYNCRIP Gene

    Size:
    623 amino acids
    Molecular mass:
    69603 Da
    Quaternary structure:
    • 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.
    SequenceCaution:
    • Sequence=AAH15575.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence starting in position 413.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SYNCRIP Gene

    Alternative splice isoforms for SYNCRIP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYNCRIP Gene

Proteomics data for SYNCRIP Gene at MOPED

Post-translational modifications for SYNCRIP Gene

  • 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).
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys123, Lys221, Lys356, Lys363, and Lys371

No data available for DME Specific Peptides for SYNCRIP Gene

Domains for SYNCRIP Gene

Gene Families for SYNCRIP Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing

Protein Domains for SYNCRIP Gene

UniProtKB/Swiss-Prot:

HNRPQ_HUMAN
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:
    • O60506
  • Contains 3 RRM (RNA recognition motif) domains.:
    • O60506
genes like me logo Genes that share domains with SYNCRIP: view

Function for SYNCRIP Gene

Molecular function for SYNCRIP Gene

UniProtKB/Swiss-Prot 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) - Molecular Function for SYNCRIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
GO:0003723 RNA binding TAS 9847309
GO:0005515 protein binding IPI 12674497
GO:0008143 poly(A) binding IEA --
genes like me logo Genes that share ontologies with SYNCRIP: view
genes like me logo Genes that share phenotypes with SYNCRIP: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SYNCRIP Gene

Localization for SYNCRIP Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNCRIP Gene

Cytoplasm. Microsome. Endoplasmic reticulum. Nucleus. Note=The tyrosine phosphorylated form bound to RNA is found in microsomes (By similarity). Localized in cytoplasmic mRNP granules containing untranslated mRNAs. {ECO:0000250}.
Isoform 1: Nucleus, nucleoplasm. Note=Expressed predominantly in the nucleoplasm. {ECO:0000250}.
Isoform 2: Nucleus, nucleoplasm. Note=Expressed predominantly in the nucleoplasm. {ECO:0000250}.
Isoform 3: Nucleus, nucleoplasm. Note=Expressed predominantly in the nucleoplasm. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SYNCRIP Gene COMPARTMENTS Subcellular localization image for SYNCRIP gene
Compartment Confidence
nucleus 5
cytosol 2
endoplasmic reticulum 2

Gene Ontology (GO) - Cellular Components for SYNCRIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 9847309
GO:0005654 nucleoplasm IEA --
GO:0005737 cytoplasm --
GO:0005783 endoplasmic reticulum IEA --
GO:0016020 membrane IDA 16210410
genes like me logo Genes that share ontologies with SYNCRIP: view

Pathways for SYNCRIP Gene

SuperPathways for SYNCRIP Gene

Superpath Contained pathways
1 Translational Control
genes like me logo Genes that share pathways with SYNCRIP: view

Pathways by source for SYNCRIP Gene

1 Cell Signaling Technology pathway for SYNCRIP Gene

Gene Ontology (GO) - Biological Process for SYNCRIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IC 11991638
GO:0001649 osteoblast differentiation IDA 16210410
GO:0006396 RNA processing TAS 9847309
GO:0008380 RNA splicing TAS 9847309
GO:0016032 viral process IEA --
genes like me logo Genes that share ontologies with SYNCRIP: view

Transcripts for SYNCRIP Gene

Unigene Clusters for SYNCRIP Gene

Synaptotagmin binding, cytoplasmic RNA interacting protein:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SYNCRIP Gene

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: - -
SP6: - - - -
SP7: - - - - -
SP8: -
SP9: - - -
SP10:
SP11:
SP12:

ExUns: 12a · 12b ^ 13a · 13b ^ 14a · 14b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10: -
SP11: -
SP12:

Relevant External Links for SYNCRIP Gene

GeneLoc Exon Structure for
SYNCRIP
ECgene alternative splicing isoforms for
SYNCRIP

Expression for SYNCRIP Gene

mRNA expression in normal human tissues for SYNCRIP Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SYNCRIP Gene

SOURCE GeneReport for Unigene cluster for SYNCRIP Gene Hs.571177

mRNA Expression by UniProt/SwissProt for SYNCRIP Gene

O60506-HNRPQ_HUMAN
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.
genes like me logo Genes that share expressions with SYNCRIP: view

Orthologs for SYNCRIP Gene

This gene was present in the common ancestor of animals.

Orthologs for SYNCRIP Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYNCRIP 36
  • 99.94 (n)
  • 100 (a)
SYNCRIP 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SYNCRIP 36
  • 97.32 (n)
  • 100 (a)
SYNCRIP 37
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SYNCRIP 36
  • 98.13 (n)
  • 100 (a)
SYNCRIP 37
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Syncrip 36
  • 96.74 (n)
  • 99.68 (a)
Syncrip 16
Syncrip 37
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 98 (a)
OneToMany
-- 37
  • 98 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia SYNCRIP 37
  • 99 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYNCRIP 37
  • 97 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SYNCRIP 37
  • 94 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.25249 36
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.8724 36
syncrip 36
  • 87.53 (n)
  • 94.86 (a)
zebrafish
(Danio rerio)
Actinopterygii syncrip 36
  • 76.94 (n)
  • 86.68 (a)
syncrip 37
  • 79 (a)
OneToMany
syncripl 37
  • 84 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG17838 37
  • 46 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea hrp-2 37
  • 40 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 53 (a)
OneToMany
Species with no ortholog for SYNCRIP:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SYNCRIP Gene

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

Paralogs for SYNCRIP Gene

Paralogs for SYNCRIP Gene

Selected SIMAP similar genes for SYNCRIP Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for SYNCRIP Gene

genes like me logo Genes that share paralogs with SYNCRIP: view

Variants for SYNCRIP Gene

Sequence variations from dbSNP and Humsavar for SYNCRIP Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs11331 -- 85,614,689(-) TGAAC(A/G)GGTGC intron-variant, utr-variant-3-prime
rs13384 -- 85,608,485(+) TGAAA(A/G)GAACA utr-variant-3-prime
rs15310 -- 85,614,262(-) CTTGT(A/T)TTCTT intron-variant, utr-variant-3-prime
rs911927 -- 85,618,142(+) CCTAT(C/G)TCTCA intron-variant
rs974247 -- 85,638,848(-) AATAA(A/G)TTTTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYNCRIP Gene

Variant ID Type Subtype PubMed ID
nsv886334 CNV Loss 21882294
nsv5383 CNV Loss 18451855

Relevant External Links for SYNCRIP Gene

HapMap Linkage Disequilibrium report
SYNCRIP
Human Gene Mutation Database (HGMD)
SYNCRIP

Disorders for SYNCRIP Gene

No disorders were found for SYNCRIP Gene.

No data available for UniProtKB/Swiss-Prot for SYNCRIP Gene

Publications for SYNCRIP Gene

  1. A novel heterogeneous nuclear ribonucleoprotein-like protein interacts with NS1 of the minute virus of mice. (PMID: 9847309) Harris C.E. … Astell C.R. (J. Virol. 1999) 2 3 4 23
  2. Two-hybrid cloning identifies an RNA-binding protein, GRY-RBP, as a component of apobec-1 editosome. (PMID: 11352648) Lau P.P. … Chan L. (Biochem. Biophys. Res. Commun. 2001) 2 3 4 23
  3. SMN interacts with a novel family of hnRNP and spliceosomal proteins. (PMID: 11574476) Mourelatos Z. … Dreyfuss G. (EMBO J. 2001) 3 4 23
  4. An RNA-interacting protein, SYNCRIP (heterogeneous nuclear ribonuclear protein Q1/NSAP1) is a component of mRNA granule transported with inositol 1,4,5-trisphosphate receptor type 1 mRNA in neuronal dendrites. (PMID: 15475564) Bannai H. … Mikoshiba K. (J. Biol. Chem. 2004) 3 23
  5. The acidic domain of hnRNPQ (NSAP1) has structural similarity to Barstar and binds to Apobec1. (PMID: 17010310) Quaresma A.J. … Kobarg J. (Biochem. Biophys. Res. Commun. 2006) 3 23

Products for SYNCRIP Gene

Sources for SYNCRIP Gene

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