Human Gene CLASRP (uc002pak.3) Description and Page Index
  Description: Homo sapiens CLK4-associating serine/arginine rich protein (CLASRP), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:45,542,298-45,574,214 Size: 31,917 Total Exon Count: 21 Strand: +
Coding Region
   Position: hg19 chr19:45,543,471-45,574,103 Size: 30,633 Coding Exon Count: 20 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:45,542,298-45,574,214)mRNA (may differ from genome)Protein (674 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: CLASR_HUMAN
DESCRIPTION: RecName: Full=CLK4-associating serine/arginine rich protein; AltName: Full=Splicing factor, arginine/serine-rich 16; AltName: Full=Suppressor of white-apricot homolog 2;
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).
SUBUNIT: Probably interacts with CLK4 (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity).
PTM: Phosphorylated in vitro by CLK4 (By similarity).
SIMILARITY: Belongs to the splicing factor SR family.
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;

-  MalaCards Disease Associations
  MalaCards Gene Search: CLASRP
Diseases sorted by gene-association score: charcot-marie-tooth disease, type 2d (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 45.67 RPKM in Testis
Total median expression: 1259.72 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -51.1098-0.521 Picture PostScript Text
3' UTR -25.80111-0.232 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR019147 - SWAP_N_domain

Pfam Domains:
PF09750 - Alternative splicing regulator

ModBase Predicted Comparative 3D Structure on Q8N2M8
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006397 mRNA processing
GO:0008380 RNA splicing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AF042800 - Homo sapiens suppressor of white apricot homolog 2 (SWAP2) mRNA, complete cds.
AK293333 - Homo sapiens cDNA FLJ54587 complete cds, highly similar to Splicing factor, arginine/serine-rich 16.
AY358944 - Homo sapiens clone DNA38269 SWAP2 (UNQ2428) mRNA, complete cds.
BC013178 - Homo sapiens splicing factor, arginine/serine-rich 16, mRNA (cDNA clone IMAGE:4340697).
AK094681 - Homo sapiens cDNA FLJ37362 fis, clone BRAMY2024004, highly similar to Splicing factor, arginine/serine-rich 16.
BC080554 - Homo sapiens splicing factor, arginine/serine-rich 16, mRNA (cDNA clone MGC:99647 IMAGE:6258057), complete cds.
AB385009 - Synthetic construct DNA, clone: pF1KB4995, Homo sapiens SFRS16 gene for splicing factor, arginine/serine-rich 16, complete cds, without stop codon, in Flexi system.
KJ902205 - Synthetic construct Homo sapiens clone ccsbBroadEn_11599 CLASRP gene, encodes complete protein.
BC131496 - Homo sapiens hypothetical protein FLJ32955, mRNA (cDNA clone IMAGE:40081073).
AK074590 - Homo sapiens cDNA FLJ90109 fis, clone HEMBA1006544.
AL080189 - Homo sapiens mRNA; cDNA DKFZp434A162 (from clone DKFZp434A162).
JD218943 - Sequence 199967 from Patent EP1572962.
JD484045 - Sequence 465069 from Patent EP1572962.
JD281665 - Sequence 262689 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CLASR_HUMAN, NM_007056, NP_008987, O96026, Q6UW71, Q8N2M8, Q96DX2, SFRS16, SWAP2, UNQ2428/PRO4988
UCSC ID: uc002pak.3
RefSeq Accession: NM_007056
Protein: Q8N2M8 (aka CLASR_HUMAN)
CCDS: CCDS12652.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_007056.2
exon count: 21CDS single in 3' UTR: no RNA size: 2250
ORF size: 2025CDS single in intron: no Alignment % ID: 99.96
txCdsPredict score: 4250.00frame shift in genome: no % Coverage: 99.29
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.