InnateDB: Systems Biology of the Innate Immune Response

Mus musculus Gene: Kdm5c

Summary

InnateDB Gene

IDBG-180176.6

Last Modified

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

Gene Symbol

Kdm5c

Gene Name

lysine (K)-specific demethylase 5C

Synonyms

D930009K15Rik; Jarid1c; mKIAA0234; Smcx

Species

Mus musculus

Ensembl Gene

ENSMUSG00000025332

Encoded Proteins

IDBP-180178

lysine (K)-specific demethylase 5C

IDBP-255672

lysine (K)-specific demethylase 5C

IDBP-255674

lysine (K)-specific demethylase 5C

IDBP-532085

lysine (K)-specific demethylase 5C

IDBP-542168

lysine (K)-specific demethylase 5C

Protein Structure

Useful resources

Stemformatics EHFPI ImmGen

Entrez Gene

Summary

This gene does not have any Entrez summary - the following is the summary from its human ortholog ENSG00000126012:
This gene is a member of the SMCY homolog family and encodes a protein with one ARID domain, one JmjC domain, one JmjN domain and two PHD-type zinc fingers. The DNA-binding motifs suggest this protein is involved in the regulation of transcription and chromatin remodeling. Mutations in this gene have been associated with X-linked mental retardation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2009]

Gene Information

Type

Protein coding

Genomic Location

Chromosome X:152233020-152274535

Strand

Forward strand

Band

Transcripts

ENSMUST00000082177	ENSMUSP00000080814
ENSMUST00000112588	ENSMUSP00000108207
ENSMUST00000112584	ENSMUSP00000108203
ENSMUST00000154938
ENSMUST00000156114	ENSMUSP00000122750
ENSMUST00000155793	ENSMUSP00000123364

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 3 experimentally validated interaction(s) in this database.
They are also associated with 16 interaction(s) predicted by orthology.

Experimentally validated
Total	3 [view]
Protein-Protein	2 [view]
Protein-DNA	1 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	16 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003677	DNA binding
GO:0005515	protein binding
GO:0008270	zinc ion binding
GO:0016706	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors
GO:0032453	histone demethylase activity (H3-K4 specific)

Biological Process

GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0034720	histone H3-K4 demethylation
GO:0055114	oxidation-reduction process

Cellular Component

GO:0005622	intracellular
GO:0005634	nucleus

Orthologs

Species

Homo sapiens

Bos taurus

Gene ID

Gene Order

ENSG00000126012

View Gene Order

ENSBTAG00000014943

Not yet available

Pathways

NETPATH

REACTOME

REACT_218274

Chromatin organization pathway

REACT_256030

HDMs demethylate histones pathway

REACT_202766

Chromatin modifying enzymes pathway

KEGG

INOH

PID NCI

Pathway Predictions based on Human Orthology Data

NETPATH

REACTOME

REACT_228178

HDMs demethylate histones pathway

REACT_172623

Chromatin organization pathway

REACT_172633

Chromatin modifying enzymes pathway

KEGG

INOH

PID NCI

Cross-References

SwissProt

P41230

TrEMBL

UniProt Splice Variant

Entrez Gene

20591

UniGene

Mm.142655

RefSeq

XM_006528771 XM_006528772 NM_013668 XM_006528769 XM_006528770 XM_006528774

OMIM

CCDS

CCDS41178

HPRD

IMGT

MGI ID

MGI:99781

MGI Symbol

Kdm5c

EMBL

AF039894 AF127245 AK008105 AK011577 AK129096 AK155279 AK155427 AK155651 AK158340 BC043096 BC054550 L29563 Z29651

GenPept

AAA62384 AAB96762 AAD53049 AAH43096 AAH54550 BAB25462 BAC97906 BAE33161 BAE33260 BAE33367 BAE34464 CAA82759

RNA Seq Atlas

20591