jmjd1ca jumonji domain containing 1Ca [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: jmjd1caprovided by ZNC
Official Full Name: jumonji domain containing 1Caprovided by ZNC
Primary source: ZFIN:ZDB-GENE-130530-832
See related: AllianceGenome:ZFIN:ZDB-GENE-130530-832
Gene type: protein coding
RefSeq status: MODEL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary: Predicted to enable histone H3K9me/H3K9me2 demethylase activity and metal ion binding activity. Acts upstream of or within hematopoietic progenitor cell differentiation. Predicted to be located in nucleus. Predicted to be part of histone deacetylase complex. Orthologous to human JMJD1C (jumonji domain containing 1C). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 17

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (43702681..43838784, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (12943676..13001404)

Chromosome 17 - NC_007128.7 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

G38901 (e-PCR)
- UniSTS:798

Z9830 (e-PCR)
- UniSTS:50246

fc18g09.x1 (e-PCR)
- UniSTS:192894

fc18g09.x1 (e-PCR)
- UniSTS:192895

G47392 (e-PCR)
- UniSTS:108172

G40398 (e-PCR)
- UniSTS:82617

z5679 (e-PCR), detects polymorphism
- UniSTS:205257

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables histone H3K9 demethylase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K9me/H3K9me2 demethylase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in demethylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of histone deacetylase 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 JmjC domain-containing histone demethylation protein 2C

Names: zmp:0000000829

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007128.7 Reference GRCz11 Primary Assembly

Range

43702681..43838784 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021467470.2 → XP_021323145.1 probable JmjC domain-containing histone demethylation protein 2C

UniProtKB/TrEMBL

A0A8M9PPN0

Conserved Domains (2) summary

cl21464
Location:2431 → 2540

cupin_like; Conserved domain found in cupin and related proteins

cl26464
Location:823 → 1254

Atrophin-1; Atrophin-1 family