Scaf4 SR-related CTD-associated factor 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Scaf4provided by RGD
Official Full Name: SR-related CTD-associated factor 4provided by RGD
Primary source: RGD:727896
See related: EnsemblRapid:ENSRNOG00000002104 AllianceGenome:RGD:727896
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Sfrs15; Srsf15
Summary: Predicted to enable RNA binding activity and RNA polymerase II C-terminal domain phosphoserine binding activity. Involved in mRNA processing. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human SCAF4 (SR-related CTD associated factor 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 44.7), Kidney (RPKM 40.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q11

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (42951254..43007293, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (29460479..29521153, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (30371713..30428073, complement)

Chromosome 11 - NC_086029.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Markers

RH141768 (e-PCR)
- UniSTS:223761

D11Wox12 (e-PCR)
- UniSTS:239650

D11Wox13 (e-PCR)
- UniSTS:239651

Sra4-pending (e-PCR), detects polymorphism
- UniSTS:259148

G15982 (e-PCR)
- UniSTS:26296

D11Rat15 (e-PCR)
- UniSTS:118230

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II C-terminal domain phosphoserine binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II C-terminal domain phosphoserine binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II C-terminal domain phosphoserine binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II C-terminal domain phosphoserine binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in mRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: SR-related and CTD-associated factor 4

Names: CTD-binding SR-like protein rA4; serine/arginine-rich splicing factor 15; splicing factor, arginine/serine-rich 15

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001037347.2 → NP_001032424.2 SR-related and CTD-associated factor 4

Status: VALIDATED

Source sequence(s)

AY387086, U49058

UniProtKB/Swiss-Prot

F1LSM7, Q63627

Related

ENSRNOP00000047258.5, ENSRNOT00000047741.8

Conserved Domains (4) summary

PRK07994
Location:124 → 266

PRK07994; DNA polymerase III subunits gamma and tau; Validated

cd12461
Location:570 → 650

RRM_SCAF4; RNA recognition motif found in SR-related and CTD-associated factor 4 (SCAF4) and similar proteins

TIGR01622
Location:1049 → 1140

SF-CC1; splicing factor, CC1-like family

cd17005
Location:5 → 135

CID_SFRS15_SCAF4; CID (CTD-Interacting Domain) of Splicing factor arginine serine rich 15