U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

scaf4a SR-related CTD-associated factor 4a [ Danio rerio (zebrafish) ]

Gene ID: 567501, updated on 16-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
scaf4aprovided by ZNC
Official Full Name
SR-related CTD-associated factor 4aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-9003
See related
Ensembl:ENSDARG00000077093 AllianceGenome:ZFIN:ZDB-GENE-030131-9003
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fa96d07; wu:fa96d07; si:dkey-50p8.3
Summary
Predicted to enable RNA binding activity. Orthologous to human SCAF4 (SR-related CTD associated factor 4). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See scaf4a in Genome Data Viewer
Location:
chromosome: 10
Exon count:
20
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (25700812..25716871, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (25739082..25755160, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene TIAM Rac1 associated GEF 1a Neighboring gene superoxide dismutase 1, soluble Neighboring gene UDP glucuronosyltransferase 5 family, polypeptide D1 Neighboring gene periostin, osteoblast specific factor a

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. The spatial-temporal expression and functional divergence of bach homologs in zebrafish Danio rerio. Luo Q, et al. J Fish Biol, 2016 Apr. PMID 26992035
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SCAF4 variants associated with focal epilepsy accompanied by multisystem disorders.
    Title: SCAF4 variants associated with focal epilepsy accompanied by multisystem disorders.
Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Homology

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 RNA polymerase II C-terminal domain phosphoserine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
splicing factor, arginine/serine-rich 15

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    25700812..25716871 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_690795.8 → XP_695887.5  splicing factor, arginine/serine-rich 15

    UniProtKB/TrEMBL
    A0A8N7TBP0, E7F4U8
    Related
    ENSDARP00000107896.2, ENSDART00000125665.4
    Conserved Domains (4) summary
    COG0724
    Location:454 → 519
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:4 → 125
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    pfam07271
    Location:583 → 748
    Cytadhesin_P30; Cytadhesin P30/P32
    cl17169
    Location:454 → 534
    RRM_SF; RNA recognition motif (RRM) superfamily
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials
Tools