Human Gene SRSF11 (uc001des.3) Description and Page Index
  Description: Homo sapiens serine/arginine-rich splicing factor 11 (SRSF11), transcript variant 1, mRNA.
RefSeq Summary (NM_004768): This gene encodes 54-kD nuclear protein that contains an arginine/serine-rich region similar to segments found in pre-mRNA splicing factors. Although the function of this protein is not yet known, structure and immunolocalization data suggest that it may play a role in pre-mRNA processing. Alternative splicing results in multiple transcript variants encoding different proteins. In addition, a pseudogene of this gene has been found on chromosome 12.[provided by RefSeq, Sep 2010].
Transcript (Including UTRs)
   Position: hg19 chr1:70,671,365-70,717,701 Size: 46,337 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr1:70,687,320-70,716,488 Size: 29,169 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:70,671,365-70,717,701)mRNA (may differ from genome)Protein (484 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SRS11_HUMAN
DESCRIPTION: RecName: Full=Serine/arginine-rich splicing factor 11; AltName: Full=Arginine-rich 54 kDa nuclear protein; Short=p54; AltName: Full=Splicing factor, arginine/serine-rich 11;
FUNCTION: May function in pre-mRNA splicing.
SUBUNIT: Interacts with PUF60.
INTERACTION: P14921:ETS1; NbExp=2; IntAct=EBI-1051785, EBI-913209;
SUBCELLULAR LOCATION: Nucleus. Note=Colocalizes with spliceosome components.
SIMILARITY: Belongs to the splicing factor SR family.
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 59.85 RPKM in Cervix - Endocervix
Total median expression: 1870.29 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 -39.19124-0.316 Picture PostScript Text
3' UTR -280.151213-0.231 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

SCOP Domains:
54928 - RNA-binding domain, RBD

ModBase Predicted Comparative 3D Structure on Q05519
FrontTopSide
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0006405 RNA export from nucleus
GO:0006406 mRNA export from nucleus
GO:0008380 RNA splicing
GO:0031124 mRNA 3'-end processing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0016607 nuclear speck


-  Descriptions from all associated GenBank mRNAs
  BC022815 - Homo sapiens, clone IMAGE:4639478, mRNA.
BC032727 - Homo sapiens splicing factor, arginine/serine-rich 11, mRNA (cDNA clone IMAGE:5532638), partial cds.
AK311184 - Homo sapiens cDNA, FLJ18226.
AK310447 - Homo sapiens cDNA, FLJ17489.
BC040436 - Homo sapiens splicing factor, arginine/serine-rich 11, mRNA (cDNA clone MGC:48837 IMAGE:5518580), complete cds.
M74002 - Human arginine-rich nuclear protein mRNA, complete cds.
AK300147 - Homo sapiens cDNA FLJ58939 complete cds, highly similar to Splicing factor arginine/serine-rich 11.
JD142439 - Sequence 123463 from Patent EP1572962.
AK310666 - Homo sapiens cDNA, FLJ17708.
BC017359 - Homo sapiens splicing factor, arginine/serine-rich 11, mRNA (cDNA clone IMAGE:5092873), partial cds.
AK301670 - Homo sapiens cDNA FLJ52287 complete cds, highly similar to Splicing factor arginine/serine-rich 11.
BC002784 - Homo sapiens splicing factor, arginine/serine-rich 11, mRNA (cDNA clone IMAGE:3615263), partial cds.
BC009840 - Homo sapiens splicing factor, arginine/serine-rich 11, mRNA (cDNA clone IMAGE:3845506), partial cds.
CU691872 - Synthetic construct Homo sapiens gateway clone IMAGE:100021205 5' read SFRS11 mRNA.
KJ892736 - Synthetic construct Homo sapiens clone ccsbBroadEn_02130 SRSF11 gene, encodes complete protein.
AK021742 - Homo sapiens cDNA FLJ11680 fis, clone HEMBA1004820.
BX640645 - Homo sapiens mRNA; cDNA DKFZp686P22142 (from clone DKFZp686P22142).
AL832279 - Homo sapiens mRNA; cDNA DKFZp667E0418 (from clone DKFZp667E0418).
BX641004 - Homo sapiens mRNA; cDNA DKFZp686D02116 (from clone DKFZp686D02116).
BX537679 - Homo sapiens mRNA; cDNA DKFZp686M13204 (from clone DKFZp686M13204).
JD250991 - Sequence 232015 from Patent EP1572962.
JD291376 - Sequence 272400 from Patent EP1572962.
JD273157 - Sequence 254181 from Patent EP1572962.
AB062486 - Homo sapiens OK/SW-cl.33 mRNA, partial cds.
JD048412 - Sequence 29436 from Patent EP1572962.
JD244516 - Sequence 225540 from Patent EP1572962.
JD115249 - Sequence 96273 from Patent EP1572962.
JD403693 - Sequence 384717 from Patent EP1572962.
JD156437 - Sequence 137461 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q05519 (Reactome details) participates in the following event(s):

R-HSA-72124 Formation of the Spliceosomal A Complex
R-HSA-75096 Docking of the TAP:EJC Complex with the NPC
R-HSA-72143 Lariat Formation and 5'-Splice Site Cleavage
R-HSA-72139 Formation of the active Spliceosomal C (B*) complex
R-HSA-72127 Formation of the Spliceosomal B Complex
R-HSA-72130 Formation of an intermediate Spliceosomal C (Bact) complex
R-HSA-8849157 TREX complex binds spliced, capped mRNA:CBC:EJC cotranscriptionally
R-HSA-72185 mRNA polyadenylation
R-HSA-72180 Cleavage of mRNA at the 3'-end
R-HSA-156661 Formation of Exon Junction Complex
R-HSA-159101 NXF1:NXT1 (TAP:p15) binds capped mRNA:CBC:EJC:TREX (minus DDX39B)
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-159236 Transport of Mature mRNA derived from an Intron-Containing Transcript
R-HSA-72187 mRNA 3'-end processing
R-HSA-109688 Cleavage of Growing Transcript in the Termination Region
R-HSA-72172 mRNA Splicing
R-HSA-72202 Transport of Mature Transcript to Cytoplasm
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-73856 RNA Polymerase II Transcription Termination
R-HSA-8953854 Metabolism of RNA
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_004768, NP_004759, Q05519, Q5T758, Q8IWE6, SFRS11, SRS11_HUMAN
UCSC ID: uc001des.3
RefSeq Accession: NM_004768
Protein: Q05519 (aka SRS11_HUMAN)
CCDS: CCDS647.1, CCDS53332.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_004768.3
exon count: 13CDS single in 3' UTR: no RNA size: 2811
ORF size: 1455CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3049.50frame shift in genome: no % Coverage: 99.32
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.