sf3b4 splicing factor 3b, subunit 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sf3b4provided by ZNC
Official Full Name: splicing factor 3b, subunit 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-020419-22
See related: Ensembl:ENSDARG00000018574 AllianceGenome:ZFIN:ZDB-GENE-020419-22
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fb36a04; chunp6902; wu:fb36a04
Summary: Predicted to enable RNA binding activity. Acts upstream of or within regulation of retina development in camera-type eye and visual behavior. Predicted to be located in nucleus. Predicted to be part of U2 snRNP and precatalytic spliceosome. Is expressed in head. 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]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 19

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (7424358..7430856)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (7505433..7511931)

Chromosome 19 - NC_007130.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Transcriptomic analysis reveals mitochondrial dysfunction in the pathogenesis of Nager syndrome in sf3b4-depleted zebrafish.
Title: Transcriptomic analysis reveals mitochondrial dysfunction in the pathogenesis of Nager syndrome in sf3b4-depleted zebrafish.
Transcriptome alterations in sf3b4-depleted zebrafish: Insights into cataract formation in retinitis pigmentosa model.
Title: Transcriptome alterations in sf3b4-depleted zebrafish: Insights into cataract formation in retinitis pigmentosa model.

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General gene information

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Gene Ontology Provided by ZFIN

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 nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within visual behavior	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of precatalytic spliceosome	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: splicing factor 3B subunit 4

Names: splicing factor 3b, subunit 4, 49kD

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_153661.4 → NP_705947.3 splicing factor 3B subunit 4

See identical proteins and their annotated locations for NP_705947.3

Status: VALIDATED

Source sequence(s)

CT611775, EH501773

UniProtKB/TrEMBL

Q1LVA6, Q6NWB3

Related

ENSDARP00000022759.7, ENSDART00000004622.9

Conserved Domains (2) summary

cd12334
Location:15 → 88

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

cd12335
Location:99 → 181

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