Sf3b4 splicing factor 3B subunit 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sf3b4provided by RGD
Official Full Name: splicing factor 3B subunit 4provided by RGD
Primary source: RGD:1309667
See related: EnsemblRapid:ENSRNOG00000021181 AllianceGenome:RGD:1309667
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable RNA binding activity and splicing factor binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within positive regulation of mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U12-type spliceosomal complex; U2 snRNP; and U2-type precatalytic spliceosome. Biomarker of hepatocellular carcinoma. Human ortholog(s) of this gene implicated in Nager acrofacial dysostosis; cervical cancer; and hepatocellular carcinoma. Orthologous to human SF3B4 (splicing factor 3b subunit 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 98.0), Testes (RPKM 84.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (186421667..186426419)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (183732791..183737545)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (198312428..198317180)

Chromosome 2 - NC_086020.1 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?

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General gene information

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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 splicing factor binding	IEA Inferred from Electronic Annotation more info
enables splicing factor binding	ISO Inferred from Sequence Orthology more info
enables splicing factor binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of U12-type spliceosomal complex	IEA Inferred from Electronic Annotation more info
part_of U12-type spliceosomal complex	ISO Inferred from Sequence Orthology more info
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type precatalytic spliceosome	IEA Inferred from Electronic Annotation more info
part_of U2-type precatalytic spliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type spliceosomal complex	ISO Inferred from Sequence Orthology more info
part_of U2-type spliceosomal complex	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of precatalytic spliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of spliceosomal complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: splicing factor 3B subunit 4

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_001011951.1 → NP_001011951.1 splicing factor 3B subunit 4

See identical proteins and their annotated locations for NP_001011951.1

Status: PROVISIONAL

Source sequence(s)

BC078997

UniProtKB/Swiss-Prot

Q6AYL5

UniProtKB/TrEMBL

A0A8L2QI40, A6K353

Related

ENSRNOP00000028758.6, ENSRNOT00000028758.7

Conserved Domains (2) summary

cd12334
Location:15 → 88

RRM1_SF3B4; RNA recognition motif 1 (RRM1) found in splicing factor 3B subunit 4 (SF3B4) and similar proteins

cd12335
Location:99 → 181

RRM2_SF3B4; RNA recognition motif 2 (RRM2) found in splicing factor 3B subunit 4 (SF3B4) and similar proteins