setdb1a SET domain bifurcated histone lysine methyltransferase 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: setdb1aprovided by ZNC
Official Full Name: SET domain bifurcated histone lysine methyltransferase 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-2421
See related: Ensembl:ENSDARG00000041243 AllianceGenome:ZFIN:ZDB-GENE-030131-2421
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: SETDB1; fc07d03; wu:fc07d03; si:ch211-81a5.6
Summary: Predicted to enable histone H3K9 methyltransferase activity and promoter-specific chromatin binding activity. Predicted to be involved in heterochromatin organization; negative regulation of gene expression; and positive regulation of DNA methylation-dependent heterochromatin formation. Predicted to act upstream of or within chromatin organization and methylation. Predicted to be located in chromosome. Predicted to be active in nucleus. Is expressed in telencephalon. Human ortholog(s) of this gene implicated in autistic disorder and lung cancer. Orthologous to human SETDB1 (SET domain bifurcated histone lysine methyltransferase 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 19

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (9111548..9144392)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (9192623..9225467)

Chromosome 19 - NC_007130.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

fc11d11.x1 (e-PCR)
- UniSTS:192517

fc07d03.x1 (e-PCR)
- UniSTS:203753

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone H3K4 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K9 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	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
involved_in heterochromatin organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
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

Go to the top of the page Help

Preferred Names: histone-lysine N-methyltransferase SETDB1-A

Names: SET domain, bifurcated 1a

NP_001038232.1

EC 2.1.1.354

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001044767.2 → NP_001038232.1 histone-lysine N-methyltransferase SETDB1-A

See identical proteins and their annotated locations for NP_001038232.1

Status: VALIDATED

Source sequence(s)

CR626935

UniProtKB/Swiss-Prot

Q1L8U8

Related

ENSDARP00000082769.5, ENSDART00000088336.6

Conserved Domains (4) summary

smart00317
Location:1348 → 1413

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

cd01395
Location:943 → 1003

HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...

pfam05033
Location:1030 → 1143

Pre-SET; Pre-SET motif

pfam15323
Location:394 → 525

Ashwin; Developmental protein