Smarcc1 SWI/SNF related BAF chromatin remodeling complex subunit C1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smarcc1provided by RGD
Official Full Name: SWI/SNF related BAF chromatin remodeling complex subunit C1provided by RGD
Primary source: RGD:1304850
See related: EnsemblRapid:ENSRNOG00000020804 AllianceGenome:RGD:1304850
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 chromatin binding activity and histone binding activity. Involved in prostate gland development. Predicted to be located in XY body; cytoplasm; and nucleus. Predicted to be part of SWI/SNF complex; nBAF complex; and npBAF complex. Human ortholog(s) of this gene implicated in hydrocephalus. Orthologous to human SMARCC1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 136.8), Spleen (RPKM 109.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (118986917..119093161)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (110111097..110214734)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (118206678..118326264)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Irf7 regulates the expression of Srg3 and ferroptosis axis aggravated sepsis-induced acute lung injury.
Title: Irf7 regulates the expression of Srg3 and ferroptosis axis aggravated sepsis-induced acute lung injury.
Results suggest that the multiple positive regulatory mechanisms of androgen receptor transactivation by SWI3-related gene product (SRG3) may be important for the rapid proliferation of prostate cells during prostate development and regeneration.
Title: Modulation of androgen receptor transactivation by the SWI3-related gene product (SRG3) in multiple ways.

Submit: New GeneRIF Correction

General gene information

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Markers

AA957396 (e-PCR)
- UniSTS:248126

RH133628 (e-PCR)
- UniSTS:216911

RH129646 (e-PCR)
- UniSTS:212943

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within animal organ morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within insulin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in nucleosome disassembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in prostate gland development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of SWI/SNF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of SWI/SNF complex	ISO Inferred from Sequence Orthology more info
located_in XY body	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in male germ cell nucleus	ISO Inferred from Sequence Orthology more info
part_of nBAF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of nBAF complex	ISO Inferred from Sequence Orthology more info
part_of npBAF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of npBAF complex	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: SWI/SNF complex subunit SMARCC1

Names: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1

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_001413573.2 → NP_001400502.1 SWI/SNF complex subunit SMARCC1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A0A8I6AMA8, A6I3D4

Related

ENSRNOP00000094509.1, ENSRNOT00000115679.2

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_086026.1 Reference GRCr8

Range

118986917..119093161

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006243771.5 → XP_006243833.1 SWI/SNF complex subunit SMARCC1 isoform X1

UniProtKB/TrEMBL

A0A0G2K9D6, A6I3D6

Conserved Domains (5) summary

COG5259
Location:443 → 709

RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

pfam04433
Location:451 → 536

SWIRM; SWIRM domain

pfam16495
Location:882 → 953

SWIRM-assoc_1; SWIRM-associated region 1

pfam16496
Location:31 → 444

SWIRM-assoc_2; SWIRM-associated domain at the N-terminal

pfam16498
Location:705 → 769

SWIRM-assoc_3; SWIRM-associated domain at the C-terminal
XM_006243772.5 → XP_006243834.1 SWI/SNF complex subunit SMARCC1 isoform X2

UniProtKB/TrEMBL

A6I3D6

Related

ENSRNOP00000074957.2, ENSRNOT00000082607.3

Conserved Domains (5) summary

COG5259
Location:443 → 709

RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

pfam04433
Location:451 → 536

SWIRM; SWIRM domain

pfam16495
Location:882 → 953

SWIRM-assoc_1; SWIRM-associated region 1

pfam16496
Location:31 → 444

SWIRM-assoc_2; SWIRM-associated domain at the N-terminal

pfam16498
Location:705 → 769

SWIRM-assoc_3; SWIRM-associated domain at the C-terminal