hmga1a high mobility group AT-hook 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hmga1aprovided by ZNC
Official Full Name: high mobility group AT-hook 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-010502-1
See related: Ensembl:ENSDARG00000028335 AllianceGenome:ZFIN:ZDB-GENE-010502-1
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: hmga1; hmgiy; zgc:85677; wu:fb12b06; wu:fb18f11; wu:fc19f01; wu:fi38b05
Summary: Predicted to enable transcription coregulator activity. Acts upstream of or within regulation of RNA splicing. Predicted to be located in chromatin. Predicted to be active in nucleus. Is expressed in DEL; central nervous system; heart; margin; and otic vesicle. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human HMGA1 (high mobility group AT-hook 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 23

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (3751451..3759511, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (3808548..3816608, complement)

Chromosome 23 - NC_007134.7 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

fb18f11.x1 (e-PCR)
- UniSTS:203018

etv1 (e-PCR)
- UniSTS:205638

fb12b06.x1 (e-PCR)
- UniSTS:202860

fa94a06.x1 (e-PCR)
- UniSTS:189685

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in positive regulation of macromolecule metabolic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of RNA splicing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of chromatin	IEA Inferred from Electronic Annotation more info
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: high mobility group AT-hook 1a

Names: high mobility group AT-hook 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_001289906.1 → NP_001276835.1 high mobility group AT-hook 1a isoform 2

See identical proteins and their annotated locations for NP_001276835.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

CU861894, EH590186

UniProtKB/TrEMBL

A0A8M2B8N7, E9QD31

Related

ENSDARP00000154454.1, ENSDART00000189382.1
NM_001289907.1 → NP_001276836.1 high mobility group AT-hook 1a isoform 1

See identical proteins and their annotated locations for NP_001276836.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 encode the same protein.

Source sequence(s)

CU861894, EH448024

UniProtKB/TrEMBL

F6NK50, F6NKA5, Q6NV11

Related

ENSDARP00000115025.1, ENSDART00000137826.3
NM_213168.3 → NP_998333.1 high mobility group AT-hook 1a isoform 1

See identical proteins and their annotated locations for NP_998333.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer protein (isoform 1). Variants 1 and 3 encode the same protein.

Source sequence(s)

CU861894, EH589378

UniProtKB/TrEMBL

F6NK50, F6NKA5, Q6NV11

Related

ENSDARP00000036107.7, ENSDART00000028885.9