setd2 SET domain containing 2, histone lysine methyltransferase [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: setd2provided by ZNC
Official Full Name: SET domain containing 2, histone lysine methyltransferaseprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-2140
See related: Ensembl:ENSDARG00000062244 AllianceGenome:ZFIN:ZDB-GENE-030131-2140
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
Also known as: hypb; fb97h09; wu:fb97h09
Summary: Enables histone H3K36 methyltransferase activity. Acts upstream of or within chromatin remodeling. Predicted to be active in chromosome and nucleus. Is expressed in central nervous system; intermediate cell mass of mesoderm; and telencephalon. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder; carcinoma (multiple); gastrointestinal system cancer (multiple); idiopathic pulmonary fibrosis; and malignant mesothelioma. Orthologous to human SETD2 (SET domain containing 2, histone lysine methyltransferase). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 16

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	16	NC_007127.7 (16253703..16303455)
105	previous assembly	GRCz10 (GCF_000002035.5)	16	NC_007127.6 (16345739..16395478)

Chromosome 16 - NC_007127.7 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?

SET domain-containing proteins catalyze the methylation of histone lysine residues. Setd2 was significantly expressed from 0.75 to 2 hr post fertilization, suggesting that Setd2 may catalyze the H3 lysine 36 methylation during early development.
Title: Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes.

Submit: New GeneRIF Correction

General gene information

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Markers

AI588663 (e-PCR)
- UniSTS:206193

fb97h09.x1 (e-PCR)
- UniSTS:191954

fb97h09.x1 (e-PCR)
- UniSTS:191955

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables histone H3K36 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H3K36 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K36 methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone H3K36 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables protein-lysine N-methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within methylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in chromosome	IBA Inferred from Biological aspect of Ancestor more info
located_in chromosome	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: histone-lysine N-methyltransferase SETD2

Names: huntingtin interacting protein B

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_007127.7 Reference GRCz11 Primary Assembly

Range

16253703..16303455

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009292184.4 → XP_009290459.1 histone-lysine N-methyltransferase SETD2

UniProtKB/TrEMBL

A0A8M3AHY1, A0A8M9PJZ4, F1QJI9

Related

ENSDARP00000114457.1, ENSDART00000137672.3

Conserved Domains (4) summary

smart00570
Location:1328 → 1382

AWS; associated with SET domains

smart00317
Location:1383 → 1506

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam00397
Location:2566 → 2595

WW; WW domain

pfam08236
Location:2642 → 2721

SRI; SRI (Set2 Rpb1 interacting) domain