Human Gene SRSF10 (ENST00000492112.3_11) from GENCODE V47lift37
  Description: serine and arginine rich splicing factor 10, transcript variant 2 (from RefSeq NM_054016.4)
Gencode Transcript: ENST00000492112.3_11
Gencode Gene: ENSG00000188529.15_13
Transcript (Including UTRs)
   Position: hg19 chr1:24,290,837-24,306,817 Size: 15,981 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr1:24,297,632-24,306,745 Size: 9,114 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:24,290,837-24,306,817)mRNA (may differ from genome)Protein (262 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: SRS10_HUMAN
DESCRIPTION: RecName: Full=Serine/arginine-rich splicing factor 10; AltName: Full=40 kDa SR-repressor protein; Short=SRrp40; AltName: Full=FUS-interacting serine-arginine-rich protein 1; AltName: Full=Splicing factor SRp38; AltName: Full=Splicing factor, arginine/serine-rich 13A; AltName: Full=TLS-associated protein with Ser-Arg repeats; Short=TASR; Short=TLS-associated protein with SR repeats; AltName: Full=TLS-associated serine-arginine protein; Short=TLS-associated SR protein;
FUNCTION: Splicing factor that in its dephosphorylated form acts as a general repressor of pre-mRNA splicing. Seems to interfere with the U1 snRNP 5'-splice recognition of SNRNP70. Required for splicing repression in M-phase cells and after heat shock. May be involved in regulation of alternative splicing in neurons, with isoform 1 acting as a positive and isoform 3 as a negative regulator.
SUBUNIT: The phosphorylated but not the dephosphorylated form interacts with TRA2B/SFRS10. The dephosphorylated form interacts with SNRNP70. Isoform 1 and isoform 3 interact with FUS C- terminus.
SUBCELLULAR LOCATION: Nucleus speckle. Cytoplasm.
TISSUE SPECIFICITY: Widely expressed.
PTM: Phosphorylated. Fully dephosphorylated in mitosis and partially dephosphorylated on heat shock. Isoform 3 is phosphorylated on Ser-168 (By similarity).
SIMILARITY: Belongs to the splicing factor SR family.
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C016403 2,4-dinitrotoluene
  • C023514 2,6-dinitrotoluene
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C009505 4,4'-diaminodiphenylmethane
  • C075773 4-phenylbutyric acid
  • D016604 Aflatoxin B1
  • D001564 Benzo(a)pyrene
  • D003300 Copper
  • D003375 Coumestrol
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 29.28 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 637.06 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 -34.4072-0.478 Picture PostScript Text
3' UTR -1703.806795-0.251 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 O75494
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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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0050733 RS domain binding
GO:0051082 unfolded protein binding

Biological Process:
GO:0000244 spliceosomal tri-snRNP complex assembly
GO:0000375 RNA splicing, via transesterification reactions
GO:0000398 mRNA splicing, via spliceosome
GO:0006355 regulation of transcription, DNA-templated
GO:0006376 mRNA splice site selection
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0016482 cytosolic transport
GO:0043484 regulation of RNA splicing
GO:0048024 regulation of mRNA splicing, via spliceosome
GO:0048025 negative regulation of mRNA splicing, via spliceosome

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016607 nuclear speck


-  Descriptions from all associated GenBank mRNAs
  AF419331 - Homo sapiens TLS-associated protein TASR-1 mRNA, complete cds, alternative transcript.
AK001479 - Homo sapiens cDNA FLJ10617 fis, clone NT2RP2005464.
AK054635 - Homo sapiens cDNA FLJ30073 fis, clone ASTRO2000480.
AK001286 - Homo sapiens cDNA FLJ10424 fis, clone NT2RP1000272, highly similar to Homo sapiens TLS-associated protein TASR-2 mRNA.
AK093226 - Homo sapiens cDNA FLJ35907 fis, clone TESTI2009785, weakly similar to Mus musculus TLS-associated protein with SR repeats mRNA.
AY007101 - Homo sapiens clone TCCCIA00269 mRNA sequence.
AL133655 - Homo sapiens mRNA; cDNA DKFZp434N1717 (from clone DKFZp434N1717).
JD474274 - Sequence 455298 from Patent EP1572962.
JD553808 - Sequence 534832 from Patent EP1572962.
JD333603 - Sequence 314627 from Patent EP1572962.
JD513238 - Sequence 494262 from Patent EP1572962.
JD563277 - Sequence 544301 from Patent EP1572962.
JD261005 - Sequence 242029 from Patent EP1572962.
JD046451 - Sequence 27475 from Patent EP1572962.
JD046265 - Sequence 27289 from Patent EP1572962.
JD345009 - Sequence 326033 from Patent EP1572962.
JD353362 - Sequence 334386 from Patent EP1572962.
JD261472 - Sequence 242496 from Patent EP1572962.
JD377059 - Sequence 358083 from Patent EP1572962.
JD285669 - Sequence 266693 from Patent EP1572962.
AK296175 - Homo sapiens cDNA FLJ58902 complete cds, highly similar to FUS-interacting serine-arginine-rich protein1.
JD085348 - Sequence 66372 from Patent EP1572962.
BC010074 - Homo sapiens FUS interacting protein (serine/arginine-rich) 1, mRNA (cDNA clone MGC:19515 IMAGE:4302658), complete cds.
BC001107 - Homo sapiens FUS interacting protein (serine/arginine-rich) 1, mRNA (cDNA clone MGC:968 IMAGE:3504780), complete cds.
AY150181 - Homo sapiens splicing factor SRp38-2 mRNA, complete cds; alternatively spliced.
JD564236 - Sequence 545260 from Patent EP1572962.
AF047448 - Homo sapiens TLS-associated protein TASR mRNA, complete cds.
JD286081 - Sequence 267105 from Patent EP1572962.
HQ448699 - Synthetic construct Homo sapiens clone IMAGE:100072143; CCSB003485_01 FUS interacting protein (serine/arginine-rich) 1 (FUSIP1) gene, encodes complete protein.
KJ893130 - Synthetic construct Homo sapiens clone ccsbBroadEn_02524 SRSF10 gene, encodes complete protein.
AB528881 - Synthetic construct DNA, clone: pF1KE0617, Homo sapiens FUSIP1 gene for splicing factor, arginine/serine-rich 13A, without stop codon, in Flexi system.
KJ906057 - Synthetic construct Homo sapiens clone ccsbBroadEn_15727 SRSF10 gene, encodes complete protein.
AK001656 - Homo sapiens cDNA FLJ10794 fis, clone NT2RP4000614, highly similar to FUS-interacting serine-arginine-rich protein 1.
JD245574 - Sequence 226598 from Patent EP1572962.
JD036660 - Sequence 17684 from Patent EP1572962.
JD114567 - Sequence 95591 from Patent EP1572962.
JD265557 - Sequence 246581 from Patent EP1572962.
JD345276 - Sequence 326300 from Patent EP1572962.
JD295262 - Sequence 276286 from Patent EP1572962.
JD301882 - Sequence 282906 from Patent EP1572962.
JD203245 - Sequence 184269 from Patent EP1572962.
JD162047 - Sequence 143071 from Patent EP1572962.
BC005039 - Homo sapiens FUS interacting protein (serine/arginine-rich) 1, mRNA (cDNA clone MGC:12764 IMAGE:3531441), complete cds.
BC071575 - Homo sapiens FUS interacting protein (serine/arginine-rich) 1, mRNA (cDNA clone IMAGE:5275698), complete cds.
AK055311 - Homo sapiens cDNA FLJ30749 fis, clone FEBRA2000402, highly similar to FUS-interacting serine-arginine-rich protein 1.
AK125834 - Homo sapiens cDNA FLJ43846 fis, clone TESTI4006393, highly similar to FUS-interacting serine-arginine-rich protein 1.
BX648939 - Homo sapiens mRNA; cDNA DKFZp686H0644 (from clone DKFZp686H0644).
AY150180 - Homo sapiens splicing factor SRp38 mRNA, complete cds; alternatively spliced.
JD171113 - Sequence 152137 from Patent EP1572962.
JD323029 - Sequence 304053 from Patent EP1572962.
JD307150 - Sequence 288174 from Patent EP1572962.
JD434985 - Sequence 416009 from Patent EP1572962.
JD529753 - Sequence 510777 from Patent EP1572962.
JD557552 - Sequence 538576 from Patent EP1572962.
JD446228 - Sequence 427252 from Patent EP1572962.
JD430501 - Sequence 411525 from Patent EP1572962.
JD425136 - Sequence 406160 from Patent EP1572962.
JD400655 - Sequence 381679 from Patent EP1572962.
JD401766 - Sequence 382790 from Patent EP1572962.
JD434984 - Sequence 416008 from Patent EP1572962.
JD083308 - Sequence 64332 from Patent EP1572962.
JD411911 - Sequence 392935 from Patent EP1572962.
JD258499 - Sequence 239523 from Patent EP1572962.
JD294855 - Sequence 275879 from Patent EP1572962.
JD357202 - Sequence 338226 from Patent EP1572962.
AK222994 - Homo sapiens mRNA for FUS interacting protein (serine-arginine rich) 1 isoform 2 variant, clone: HSI08538.
AF067730 - Homo sapiens TLS-associated protein TASR-2 mRNA, complete cds.
AF449427 - Homo sapiens SRrp40 mRNA, complete cds.
KJ893129 - Synthetic construct Homo sapiens clone ccsbBroadEn_02523 SRSF10 gene, encodes complete protein.
KU178536 - Homo sapiens serine/arginine-rich splicing factor 10 isoform 1 (SRSF10) mRNA, partial cds, alternatively spliced.
KU178537 - Homo sapiens serine/arginine-rich splicing factor 10 isoform 2 (SRSF10) mRNA, complete cds, alternatively spliced.
CU674556 - Synthetic construct Homo sapiens gateway clone IMAGE:100017981 5' read FUSIP1 mRNA.
DQ589999 - Homo sapiens piRNA piR-57111, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NFM6, A6NI42, A6NIU7, B4DJP9, ENST00000492112.1, ENST00000492112.2, FUSIP1, FUSIP2, NM_054016, O60572, O75494, Q5JRH9, Q5JRI0, Q5JRI2, Q5JRI3, Q5JRI4, Q96G09, Q96P17, SFRS13A, SRS10_HUMAN, TASR, uc322ncx.1, uc322ncx.2
UCSC ID: ENST00000492112.3_11
RefSeq Accession: NM_054016.4
Protein: O75494 (aka SRS10_HUMAN)

-  Gene Model Information
  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.