hmg20b high mobility group 20B [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hmg20bprovided by ZNC
Official Full Name: high mobility group 20Bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-4258
See related: Ensembl:ENSDARG00000042045 AllianceGenome:ZFIN:ZDB-GENE-030131-4258
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: fc85b02; wu:fc85b02; zgc:110001; si:dkey-110c1.6
Summary: Predicted to enable DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to be active in nucleus. Orthologous to human HMG20B (high mobility group 20B). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 22

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	22	NC_007133.7 (20169352..20178413)
105	previous assembly	GRCz10 (GCF_000002035.5)	22	NC_007133.6 (20144374..20153435)

Chromosome 22 - NC_007133.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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

fe05b07.x1 (e-PCR)
- UniSTS:195972

fc85b02.x1 (e-PCR)
- UniSTS:188343

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related

Names: high mobility group box domain containing

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_001020551.2 → NP_001018387.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform 1

See identical proteins and their annotated locations for NP_001018387.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

BX005203, EH563391, EH593686

UniProtKB/TrEMBL

A0A2R8QFN1, A0A2R8RK30, Q503Z1

Related

ENSDARP00000061616.4, ENSDART00000061617.6

Conserved Domains (1) summary

cd01390
Location:53 → 118

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...
NM_001045228.2 → NP_001038693.1 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate 3' terminal exon that extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

BX005203, EH531855, EH593412, EH604105

UniProtKB/TrEMBL

A0A0R4IWQ8, A0A8M1NA95

Related

ENSDARP00000139903.1, ENSDART00000169055.2

Conserved Domains (1) summary

cd01390
Location:53 → 118

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...