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Ss18 SS18 subunit of BAF chromatin remodeling complex [ Rattus norvegicus (Norway rat) ]

Gene ID: 361295, updated on 3-Apr-2024

Summary

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Official Symbol
Ss18provided by RGD
Official Full Name
SS18 subunit of BAF chromatin remodeling complexprovided by RGD
Primary source
RGD:1311919
See related
Ensembl:ENSRNOG00000016800 AllianceGenome:RGD:1311919
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
Summary
Predicted to enable nuclear receptor coactivator activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including ephrin receptor signaling pathway; intracellular signal transduction; and neuronal stem cell population maintenance. Predicted to be located in microtubule cytoskeleton. Predicted to be part of SWI/SNF complex and npBAF complex. 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, Apr 2022]
Expression
Biased expression in Thymus (RPKM 261.2), Lung (RPKM 253.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
18p13
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (6047619..6169151, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (5773042..5835696, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (6020267..6083055, complement)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120098243 Neighboring gene uncharacterized LOC120098206 Neighboring gene mitochondrial ribosomal protein S18B, pseudogene 1 Neighboring gene proteasome 20S subunit alpha 8 Neighboring gene TATA-box binding protein associated factor 4b Neighboring gene small nucleolar RNA SNORA17

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Genetic variability and rodent models of human aging. Phelan JP. Exp Gerontol, 1992. PMID 1521591
  2. Identification of novel genes, SYT and SSX, involved in the t(X;18)(p11.2;q11.2) translocation found in human synovial sarcoma. Clark J, et al. Nat Genet, 1994 Aug. PMID 7951320
  3. Synovial sarcoma translocation (SYT) encodes a nuclear receptor coactivator. Iwasaki T, et al. Endocrinology, 2005 Sep. PMID 15919756
  4. SYT-SSX1 (synovial sarcoma translocated) regulates PIASy ligase activity to cause overexpression of NCOA3 protein. Sun Y, et al. J Biol Chem, 2011 May 27. PMID 21454665, Free PMC Article
  5. The synovial sarcoma SYT-SSX2 oncogene remodels the cytoskeleton through activation of the ephrin pathway. Barco R, et al. Mol Biol Cell, 2007 Oct. PMID 17686994, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables nuclear receptor coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within cell morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cytoskeleton organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within ephrin receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within intracellular signal transduction ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within microtubule cytoskeleton organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neuronal stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within response to xenobiotic stimulus ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of SWI/SNF complex ISO
Inferred from Sequence Orthology
more info
  
located_in microtubule cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
part_of npBAF complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
protein SSXT
Names
SS18, nBAF chromatin remodeling complex subunit
synovial sarcoma translocation, Chromosome 18

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)

  1. NM_001100900.1 → NP_001094370.1  protein SSXT

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000018
    UniProtKB/TrEMBL
    D4ABC5, Q5XI66
    Related
    ENSRNOP00000038436.3, ENSRNOT00000032454.4
    Conserved Domains (1) summary
    pfam05030
    Location:14 → 73
    SSXT; SSXT protein (N-terminal region)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086036.1 Reference GRCr8

    Range
    6047619..6169151 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063277462.1 → XP_063133532.1  protein SSXT isoform X1

    UniProtKB/TrEMBL
    A6KLT7

  2. XM_006254438.5 → XP_006254500.1  protein SSXT isoform X2

    UniProtKB/TrEMBL
    Q5XI66
    Related
    ENSRNOP00000076846.1
    Conserved Domains (1) summary
    pfam05030
    Location:14 → 73
    SSXT; SSXT protein (N-terminal region)

  3. XM_006254437.5 → XP_006254499.1  protein SSXT isoform X3

    UniProtKB/TrEMBL
    A0A8I6B652
    Related
    ENSRNOP00000097716.1
    Conserved Domains (1) summary
    pfam05030
    Location:14 → 73
    SSXT; SSXT protein (N-terminal region)
Nucleotide Protein Strain
Heading Accession and Version

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