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smarcc1b SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1b [ Danio rerio (zebrafish) ]

Gene ID: 553471, updated on 11-Apr-2024

Summary

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Official Symbol
smarcc1bprovided by ZNC
Official Full Name
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-060503-273
See related
Ensembl:ENSDARG00000098919 AllianceGenome:ZFIN:ZDB-GENE-060503-273
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:dkeyp-114f9.3
Summary
Predicted to enable histone binding activity. Predicted to be involved in positive regulation of transcription, DNA-templated. Predicted to act upstream of or within chromatin remodeling. Predicted to be part of SWI/SNF complex; nBAF complex; and npBAF complex. Orthologous to human SMARCC1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See smarcc1b in Genome Data Viewer
Location:
chromosome: 19
Exon count:
27
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (19342177..19379084, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (19769224..19806193, complement)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene protein tyrosine phosphatase, non-receptor type 23, b Neighboring gene chondroitin sulfate proteoglycan 5b Neighboring gene KAT8 regulatory NSL complex subunit 1-like Neighboring gene asteroid homolog 1b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Screening and functional identification of lncRNAs under β-diketone antibiotic exposure to zebrafish (Danio rerio) using high-throughput sequencing. Wang X, et al. Aquat Toxicol, 2017 Jan. PMID 27951453
  2. Variant Histone H2afv reprograms DNA methylation during early zebrafish development. Madakashira B, et al. Epigenetics, 2017 Sep. PMID 29099280, Free PMC Article
  3. Knockdown screening of chromatin binding and regulatory proteins in zebrafish identified Suz12b as a regulator of tfpia and an antithrombotic drug target. Raman R, et al. Sci Rep, 2021 Jul 27. PMID 34315984, Free PMC Article
  4. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  5. 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

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in positive regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of SWI/SNF complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nBAF complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of npBAF complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
SWI/SNF complex subunit SMARCC1b

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_001089367.1 → NP_001082836.1  SWI/SNF complex subunit SMARCC1b

    See identical proteins and their annotated locations for NP_001082836.1

    Status: PROVISIONAL

    Source sequence(s)
    BC134882
    UniProtKB/TrEMBL
    A4QN49
    Related
    ENSDARP00000131040.1, ENSDART00000165206.2
    Conserved Domains (5) summary
    COG5259
    Location:388 → 896
    RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
    pfam04433
    Location:426 → 511
    SWIRM; SWIRM domain
    pfam16495
    Location:837 → 906
    SWIRM-assoc_1; SWIRM-associated region 1
    pfam16496
    Location:26 → 419
    SWIRM-assoc_2; SWIRM-associated domain at the N-terminal
    pfam16498
    Location:679 → 740
    SWIRM-assoc_3; SWIRM-associated domain at the C-terminal

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_007130.7 Reference GRCz11 Primary Assembly

    Range
    19342177..19379084 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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