U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

ss18 SS18 subunit of BAF chromatin remodeling complex [ Danio rerio (zebrafish) ]

Gene ID: 326668, updated on 2-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
ss18provided by ZNC
Official Full Name
SS18 subunit of BAF chromatin remodeling complexprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-4867
See related
Ensembl:ENSDARG00000002970 AllianceGenome:ZFIN:ZDB-GENE-030131-4867
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
zgc:55812; wu:fe02e04
Summary
Predicted to enable transcription coactivator activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in synovial sarcoma. Orthologous to human SS18 (SS18 subunit of BAF chromatin remodeling complex). [provided by Alliance of Genome Resources, Nov 2024]
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 ss18 in Genome Data Viewer
Location:
chromosome: 2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (1348263..1364678, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (2235845..2252260, complement)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene ATP-binding cassette, sub-family F (GCN20), member 3 Neighboring gene zinc finger protein 521 Neighboring gene uncharacterized LOC137487638 Neighboring gene desmoglein 2 like Neighboring gene si:ch73-140j24.4

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 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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II 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
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
protein SSXT

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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)

  1. NM_001291325.1 → NP_001278254.1  protein SSXT isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
    Source sequence(s)
    FP101911
    UniProtKB/TrEMBL
    A0A0R4IPF8, A0A8M1P5H1
    Related
    ENSDARP00000136492.1, ENSDART00000164674.2
    Conserved Domains (1) summary
    pfam05030
    Location:16 → 73
    SSXT; SSXT protein (N-terminal region)

  2. NM_199744.2 → NP_956038.1  protein SSXT isoform 1

    See identical proteins and their annotated locations for NP_956038.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
    Source sequence(s)
    EH553447, EH561714, FP101911
    UniProtKB/TrEMBL
    A0A8M1PDC6, Q802V1
    Related
    ENSDARP00000005954.7, ENSDART00000011919.10
    Conserved Domains (1) summary
    pfam05030
    Location:16 → 73
    SSXT; SSXT protein (N-terminal region)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007113.7 Reference GRCz11 Primary Assembly

    Range
    1348263..1364678 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
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