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

Summary

Official Symbol: Ss18provided by RGD
Official Full Name: SS18 subunit of BAF chromatin remodeling complexprovided by RGD
Primary source: RGD:1311919
See related: EnsemblRapid: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; microtubule cytoskeleton organization; 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, Dec 2024]
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

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_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BE099670 (e-PCR)
- UniSTS:260995

RH142872 (e-PCR)
- UniSTS:232119

BF418596 (e-PCR)
- UniSTS:243414

RH127618 (e-PCR)
- UniSTS:210928

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)

NM_001100900.1 → NP_001094370.1 protein SSXT

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

D4ABC5, Q5XI66

Related

ENSRNOP00000038436.3, ENSRNOT00000032454.5

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

NC_086036.1 Reference GRCr8

Range

6047619..6169151 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063277462.1 → XP_063133532.1 protein SSXT isoform X1

UniProtKB/TrEMBL

A0A8I5ZJA9, A6KLT7
XM_006254438.5 → XP_006254500.1 protein SSXT isoform X2

UniProtKB/TrEMBL

Q5XI66

Related

ENSRNOP00000076846.2, ENSRNOT00000113631.2

Conserved Domains (1) summary

pfam05030
Location:14 → 73

SSXT; SSXT protein (N-terminal region)
XM_006254437.5 → XP_006254499.1 protein SSXT isoform X3

UniProtKB/TrEMBL

A0A8I6B652

Related

ENSRNOP00000097716.1, ENSRNOT00000100800.2

Conserved Domains (1) summary

pfam05030
Location:14 → 73

SSXT; SSXT protein (N-terminal region)