alkbh5 alkB homolog 5, RNA demethylase [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: alkbh5provided by ZNC
Official Full Name: alkB homolog 5, RNA demethylaseprovided by ZNC
Primary source: ZFIN:ZDB-GENE-061013-602
See related: Ensembl:ENSDARG00000063003 AllianceGenome:ZFIN:ZDB-GENE-061013-602
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: zgc:154076
Summary: Enables oxidative RNA demethylase activity. Predicted to be involved in several processes, including RNA metabolic process; mRNA export from nucleus; and response to hypoxia. Predicted to be located in nuclear speck. Predicted to be active in nucleus. Orthologous to human ALKBH5 (alkB homolog 5, RNA demethylase). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 1

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	1	NC_007112.7 (8508753..8516591)
105	previous assembly	GRCz10 (GCF_000002035.5)	1	NC_007112.6 (7824642..7832480)

Chromosome 1 - NC_007112.7 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 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?

X-ray crystallographic structure of alkbh5 from Danio rerio.
Title: Crystal structure of the RNA demethylase ALKBH5 from zebrafish.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables 2-oxoglutarate-dependent dioxygenase activity	ISS Inferred from Sequence or Structural Similarity more info
enables dioxygenase activity	IEA Inferred from Electronic Annotation more info
enables mRNA N6-methyladenosine dioxygenase activity	IEA Inferred from Electronic Annotation more info
enables mRNA N6-methyladenosine dioxygenase activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables molecular condensate scaffold activity	ISS Inferred from Sequence or Structural Similarity more info
enables oxidative RNA demethylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables oxidative RNA demethylase activity	IDA Inferred from Direct Assay more info	PubMed
enables oxidative RNA demethylase activity	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in mRNA destabilization	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in non-membrane-bounded organelle assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of mRNA export from nucleus	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of mRNA processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hypoxia	ISS Inferred from Sequence or Structural Similarity more info
involved_in spermatogenesis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nuclear speck	ISS Inferred from Sequence or Structural Similarity 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
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
is_active_in paraspeckles	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: RNA demethylase ALKBH5

Names: AlkB family member 5, RNA demethylase; alkB, alkylation repair homolog 5; alkylated DNA repair protein alkB homolog 5; alpha-ketoglutarate-dependent dioxygenase alkB homolog 5

NP_001070855.1

EC 1.14.11.53

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.