InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Gene: JMJD6

Summary

InnateDB Gene

IDBG-70010.6

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

JMJD6

Gene Name

jumonji domain containing 6

Synonyms

PSR; PTDSR; PTDSR1

Species

Homo sapiens

Ensembl Gene

ENSG00000070495

Encoded Proteins

IDBP-70012

jumonji domain containing 6

IDBP-234957

jumonji domain containing 6

IDBP-384855

jumonji domain containing 6

IDBP-592000

jumonji domain containing 6

IDBP-764058

IDBP-809044

jumonji domain containing 6

Protein Structure

Useful resources

Stemformatics EHFPI ImmGen

InnateDB Annotation

Summary

PMID 26221041

Reversible arginine methylation of TRAF6 is regulated by PRMT1 and JMJD6 and this in turn regulates TRAF6-dependent TLR signalling.

Entrez Gene

Summary

This gene encodes a nuclear protein with a JmjC domain. JmjC domain-containing proteins are predicted to function as protein hydroxylases or histone demethylases. This protein was first identified as a putative phosphatidylserine receptor involved in phagocytosis of apoptotic cells; however, subsequent studies have indicated that it does not directly function in the clearance of apoptotic cells, and questioned whether it is a true phosphatidylserine receptor. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

Gene Information

Type

Protein coding

Genomic Location

Chromosome 17:76712832-76726799

Strand

Reverse strand

Band

q25.1

Transcripts

ENST00000303996	ENSP00000302916
ENST00000397625	ENSP00000380750
ENST00000445478	ENSP00000394085
ENST00000542934	ENSP00000442362
ENST00000585429	ENSP00000465330
ENST00000591460
ENST00000589982
ENST00000617192	ENSP00000483941

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 93 experimentally validated interaction(s) in this database.

Experimentally validated
Total	93 [view]
Protein-Protein	88 [view]
Protein-DNA	4 [view]
Protein-RNA	1 [view]
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003723	RNA binding
GO:0003727	single-stranded RNA binding
GO:0004872	receptor activity
GO:0005506	iron ion binding
GO:0005515	protein binding
GO:0033746	histone demethylase activity (H3-R2 specific)
GO:0033749	histone demethylase activity (H4-R3 specific)
GO:0042802	identical protein binding
GO:0070815	peptidyl-lysine 5-dioxygenase activity

Biological Process

GO:0001568	blood vessel development
GO:0001822	kidney development
GO:0002040	sprouting angiogenesis
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0006397	mRNA processing
GO:0007166	cell surface receptor signaling pathway
GO:0007507	heart development
GO:0008380	RNA splicing
GO:0018395	peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine
GO:0030324	lung development
GO:0033077	T cell differentiation in thymus
GO:0042116	macrophage activation
GO:0043277	apoptotic cell clearance
GO:0043654	recognition of apoptotic cell
GO:0045087	innate immune response (InnateDB)
GO:0048024	regulation of mRNA splicing, via spliceosome
GO:0048821	erythrocyte development
GO:0055114	oxidation-reduction process
GO:0060041	retina development in camera-type eye
GO:0070078	histone H3-R2 demethylation
GO:0070079	histone H4-R3 demethylation

Cellular Component

GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005730	nucleolus
GO:0005886	plasma membrane

Orthologs

Species

Mus musculus

Bos taurus

Gene ID

Gene Order

ENSMUSG00000056962

View Gene Order

ENSBTAG00000019153

Not yet available

Cross-References

SwissProt

TrEMBL

UniProt Splice Variant

Entrez Gene

UniGene

Hs.514505 Hs.617513

RefSeq

NM_001081461 NM_015167

HUGO

OMIM

CCDS

CCDS42383 CCDS42384

HPRD

05371

IMGT

EMBL

GenPept

RNA Seq Atlas