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

CLASRP Gene

protein-coding   GIFtS: 46
GCID: GC19P045545

CLK4-associating serine/arginine rich protein

(Previous names: splicing factor, arginine/serine-rich 16 )
(Previous symbol: SFRS16)
 Explore 1 disease affiliated with
CLASRP via our new
 Human Malady Compendium 
Biological research products
for CLASRP
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
CLK4-Associating Serine/Arginine Rich Protein1 2     Suppressor Of White-Apricot Homolog 22 3
SFRS161 2 3     Clk4 Associating SR-Related Protein2
SWAP21 2 3     Splicing Factor, Arginine/Serine-Rich 16 (Suppressor-Of-White-Apricot Homolog,
Drosophila)2
CLASP1 2     Suppressor Of White Apricot Homolog 22
Splicing Factor, Arginine/Serine-Rich 161 3     

External Ids:    HGNC: 177311   Entrez Gene: 111292   Ensembl: ENSG000001048597   UniProtKB: Q8N2M83   

Export aliases for CLASRP gene to outside databases


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

UniProtKB/Swiss-Prot: CLASR_HUMAN, Q8N2M8
Function: Probably functions as an alternative splicing regulator. May regulate the mRNA splicing of genes such as
CLK1. May act by regulating members of the CLK kinase family (By similarity)

Gene Wiki entry for CLASRP (SFRS16)


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NC_018930.1  NT_011109.16  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for CLASRP
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCLASRP promoter sequence
   Search SABiosciences Chromatin IP Primers for CLASRP

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


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

Entrez Gene cytogenetic band: 19q13.3   Ensembl cytogenetic band:  19q13.32   HGNC cytogenetic band: 19q13.3

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

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P045545:  view genomic region     (about GC identifiers)

Start:
45,542,298 bp from pter      End:
45,574,214 bp from pter
Size:
31,917 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CLASR_HUMAN, Q8N2M8 (See protein sequence)
Recommended Name: CLK4-associating serine/arginine rich protein  
Size: 674 amino acids; 77161 Da
Subunit: Probably interacts with CLK4 (By similarity)
Subcellular location: Nucleus (By similarity)
Caution: It is uncertain whether Met-1 or Met-16 is the initiator
Sequence caution: Sequence=AAC82339.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAC82340.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH80554.1;
Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: O96026 Q6UW71 Q96DX2
Alternative splicing: 2 isoforms:  Q8N2M8-1   Q8N2M8-3   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay. No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CLASRP: NX_Q8N2M8

Post-translational modifications:

  • Phosphorylated in vitro by CLK4 (By similarity)1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N2M8

  • CLASRP Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_008987.2  
    ENSEMBL proteins: 
     ENSP00000221455   ENSP00000375815   ENSP00000465750   ENSP00000375814   ENSP00000465562  
     ENSP00000438702   ENSP00000466371   ENSP00000467177  

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    Uscn Proteins for CLASRP

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--


    CLASRP for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    CLASRP for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR019147 SWAP_N_domain

    Graphical View of Domain Structure for InterPro Entry Q8N2M8

    ProtoNet protein and cluster: Q8N2M8

    UniProtKB/Swiss-Prot: CLASR_HUMAN, Q8N2M8
    Similarity: Belongs to the splicing factor SR family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: CLASR_HUMAN, Q8N2M8
    Function: Probably functions as an alternative splicing regulator. May regulate the mRNA splicing of genes such as
    CLK1. May act by regulating members of the CLK kinase family (By similarity)

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    Inhib. RNA
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1mRNA Splicing - Major Pathway
    mRNA processing0.48


    1 BioSystems Pathway for CLASRP 
        mRNA processing


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CLASRP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    5/14 Interacting proteins for CLASRP (Q8N2M82, 3 ENSP000002214554) via UniProtKB, MINT, STRING, and/or I2D (see all 14)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RHOXF2Q9BQY42, 3, ENSP000003604414MINT-68015 I2D: score=5 STRING: ENSP00000360441
    ATXN1P542532, 3, ENSP000002447694MINT-2869398 I2D: score=3 STRING: ENSP00000244769
    SMAD3P840223, ENSP000003329734I2D: score=4 STRING: ENSP00000332973
    DYRK1AQ136273, ENSP000003819324I2D: score=1 STRING: ENSP00000381932
    CLK4Q9HAZ13, ENSP000003169484I2D: score=2 STRING: ENSP00000316948
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006397mRNA processing IEA--
    GO:0008380RNA splicing IEA--


    CLASRP for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 CLASRP
    Search CenterWatch for drugs/clinical trials and news about CLASRP / CLASR 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CLASRP gene: 
    NM_007056.2  

    Unigene Cluster for CLASRP:

    CLK4-associating serine/arginine rich protein
    Hs.466917  [show with all ESTs]
    Unigene Representative Sequence: AK094681
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000221455(uc002pak.3 uc010xxh.2 uc002pan.1) ENST00000391953
    ENST00000592056 ENST00000591410 ENST00000391952(uc002pal.3) ENST00000588247
    ENST00000588936 ENST00000544944(uc002pam.3) ENST00000587112 ENST00000588016
    ENST00000585432 ENST00000585615 ENST00000591904 ENST00000587472 ENST00000592876
    ENST00000588070

    miRNA
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    Additional cDNA sequence: 

    AF042800.1 AK074590.1 AK094681.1 AK293333.1 AL080189.1 BC080554.1 BC131496.1 

    19 DOTS entries:

    DT.95097123  DT.97846179  DT.75103288  DT.445895  DT.91751836  DT.95168394  DT.121504383  DT.99927387 
    DT.212103  DT.100795460  DT.100795461  DT.40132130  DT.92003989  DT.121504384  DT.40310329  DT.91751834 
    DT.121504401  DT.91840275  DT.99950733 

    24/150 AceView cDNA sequences (see all 150):

    AI333255 BC080554 CF529957 CR604154 BC013178 AW673444 BQ710651 AI937572 
    NM_007056 CA425870 AA873552 AW675769 AL080189 T83122 BM694857 BF914720 
    CB147052 BF847904 BI821227 AF042800 AW827298 BQ574555 AI075443 BM677574 

    GeneLoc Exon Structure

    5/9 Alternative Splicing Database (ASD) splice patterns (SP) for CLASRP (see all 9)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19a ·
    SP1:                                                                    -                                                                                       
    SP2:                                                                                                                                                            
    SP3:              -                                                                                                                                             
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                        -   

    ExUns: 19b
    SP1:      
    SP2:      
    SP3:      
    SP4:      
    SP5:      


    ECgene alternative splicing isoforms for CLASRP

    (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

    CLASRP expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: AAGGAGCGGG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See CLASRP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CLASRP

    SOURCE GeneReport for Unigene cluster: Hs.466917
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    In Situ
    Assay Products:
     

     
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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 eukaryotes.

    Orthologs for CLASRP gene from 7/21 species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Clasrp1 , 5 CLK4-associating serine/arginine rich protein1, 5 87.92(n)1
    95.96(a)1
      7 (9.93 cM)5
    536091  NM_016680.41  NP_057889.31 
     195810445 
    lizard
    (Anolis carolinensis)
    Reptilia CLASRP6
    --
    84(a)
    1 ↔ 1
    LGf(3417734-3436517)
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.162262 Transcribed sequence with weak similarity to protein more 79.05(n)    BG884030.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG66951 CG6695 47.76(n)
    46.04(a)
      42937  NM_143019.2  NP_651276.2 
    worm
    (Caenorhabditis elegans)
    Secernentea F28C1.11 Protein F28C1.1 41.59(n)
    35.28(a)
      179705  NM_073723.2  NP_506124.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G369801 splicing factor, arginine/serine-rich 16 39.96(n)
    35.54(a)
      829852  NM_001204011.1  NP_001190940.1 
    rice
    (Oryza sativa)
    Liliopsida --
    splicing factor, arginine/serine-rich 16, putative...
    26(a)
    1 → many
    3(15985072-15991482)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CLASRP gene
    RSRC12  SON2  C1orf632  

    CLASRP for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/560 NCBI SNPs in CLASRP are shown (see all 560    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1455755761,2
    --45541972(+) CGGGCC/TTGGTG 1 -- us2k10--------
    rs1488937171,2
    --45542055(+) GCAGTA/GAGCCT 1 -- us2k10--------
    rs1836340051,2
    --45542070(+) CGCGCC/TACTGC 1 -- us2k10--------
    rs1882966821,2
    --45542130(+) AAATAA/CATAAA 1 -- us2k10--------
    rs1811701581,2
    --45542178(+) CTTCCC/TTTCTC 1 -- us2k10--------
    rs104049161,2
    C,F,H,--45542180(+) TCCCTT/CCTCCG 1 -- us2k1 trp310Minor allele frequency- C:0.02NS NA WA 1106
    rs1864015901,2
    --45542211(+) GATCCC/TGCCCC 1 -- us2k10--------
    rs352562081,2
    C,--45542277(+) ACCATG/ACTCCG 1 -- us2k12Minor allele frequency- A:0.01NS 94
    rs1917660341,2
    --45542450(+) CATGCC/TGCTGT 1 -- int10--------
    rs340346211,2
    F--45542471(+) TGCGTC/TCCGGC 1 -- int12Minor allele frequency- T:0.02NS 92

    HapMap Linkage Disequilibrium report for CLASRP (45542298 - 45574214 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for CLASRP: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CLASRP
    DNA2.0 Custom Variant and Variant Library Synthesis for CLASRP

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CLASRP for disorders           About GeneDecksing

    1 disease for CLASRP:    About MalaCards
    ataxia


    Export disorders for CLASRP 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 CLASRP gene, integrated from 9 sources (see all 23):
    (articles sorted by number of sources associating them with CLASRP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    2. 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)
    3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (2003)
    4. Novel SR-rich-related protein clasp specifically interacts with inactivated Clk4 and induces the exon EB inclusion of Clk. (PubMed id 12169693)1, 3 Katsu R....Hagiwara M. (2002)
    5. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)
    6. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    7. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    8. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    9. The protein network surrounding the human telomere re peat binding factors TRF1, TRF2, and POT1. (PubMed id 20811636)1 Giannone R.J....Liu Y. (2010)
    10. Association between genetic variants in VEGF, ERCC3 a nd occupational benzene haematotoxicity. (PubMed id 19773279)1 Hosgood H.D....Lan Q. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 11129 HGNC: 17731 AceView: SFRS16 Ensembl:ENSG00000104859 euGenes: HUgn11129
    ECgene: CLASRP H-InvDB: CLASRP

    (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 CLASRP 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 CLASRP gene:
    Search GeneIP for patents involving CLASRP

    GeneCards and IP:
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