smarca2 SWI/SNF related BAF chromatin remodeling complex subunit ATPase 2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: smarca2provided by ZNC
Official Full Name: SWI/SNF related BAF chromatin remodeling complex subunit ATPase 2provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-5964
See related: Ensembl:ENSDARG00000008904 AllianceGenome:ZFIN:ZDB-GENE-030131-5964
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: psa-4; zgc:66238; wu:fa56c07; wu:fi27f11
Summary: Predicted to enable DNA binding activity; chromatin binding activity; and nucleosome array spacer activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be located in chromatin. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Is expressed in hematopoietic multipotent progenitor cell; liver; and pronephric duct. Human ortholog(s) of this gene implicated in Nicolaides-Baraitser syndrome and blepharophimosis-impaired intellectual development syndrome. Orthologous to human SMARCA2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 35

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (45138931..45284143)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (44538772..44683990)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fi27f11.x1 (e-PCR)
- UniSTS:197162

fa56c07 (e-PCR)
- UniSTS:188817

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP-dependent chromatin remodeler activity	IEA Inferred from Electronic Annotation more info
enables histone binding	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of SWI/SNF complex	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: probable global transcription activator SNF2L2

Names: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2; phasmid Socket Absent PSA-4

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_001044775.2 → NP_001038240.1 probable global transcription activator SNF2L2

Status: VALIDATED

Source sequence(s)

AL928727, BX255951

UniProtKB/TrEMBL

A0A8M1N917, A0A8M3ASL9, Q1MTE3

Related

ENSDARP00000041411.7, ENSDART00000041412.9

Conserved Domains (10) summary

cd05516
Location:1384 → 1490

Bromo_SNF2L2; Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone ...

smart00592
Location:592 → 636

BRK; domain in transcription and CHROMO domain helicases

smart00573
Location:439 → 511

HSA; domain in helicases and associated with SANT domains

cd00046
Location:746 → 885

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam08430
Location:70 → 174

Forkhead_N; Forkhead N-terminal region

pfam00176
Location:729 → 1024

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:1051 → 1166

Helicase_C; Helicase conserved C-terminal domain

pfam08880
Location:173 → 207

QLQ; QLQ

pfam11235
Location:138 → 297

Med25_SD1; Mediator complex subunit 25 synapsin 1

pfam14619
Location:1261 → 1328

SnAC; Snf2-ATP coupling, chromatin remodelling complex