HOXC9 (homeobox C9)

Gene

• Entrez ID: 3225
• Gene name: Homeobox C9
• Gene symbol: HOXC9
• Synonyms (NCBI Gene): HOX3, HOX3B
• Chromosome: 12
• Chromosome location: 12q13.13
• Summary: This gene belongs to the homeobox family of genes. The homeobox genes encode a highly conserved family of transcription factors that play an important role in morphogenesis in all multicellular organisms. Mammals possess four similar homeobox gene cluster

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT023072	hsa-miR-124-3p	Microarray	18668037
MIRT1053719	hsa-miR-1343	CLIP-seq
MIRT1053720	hsa-miR-1587	CLIP-seq
MIRT1053721	hsa-miR-204	CLIP-seq
MIRT1053722	hsa-miR-211	CLIP-seq
MIRT1053723	hsa-miR-378g	CLIP-seq
MIRT1053724	hsa-miR-4446-5p	CLIP-seq
MIRT1053725	hsa-miR-4492	CLIP-seq
MIRT1053726	hsa-miR-4498	CLIP-seq
MIRT1053727	hsa-miR-4505	CLIP-seq
MIRT1053728	hsa-miR-4646-5p	CLIP-seq
MIRT1053729	hsa-miR-4656	CLIP-seq
MIRT1053730	hsa-miR-4663	CLIP-seq
MIRT1053731	hsa-miR-4675	CLIP-seq
MIRT1053732	hsa-miR-4687-3p	CLIP-seq
MIRT1053733	hsa-miR-4741	CLIP-seq
MIRT1053734	hsa-miR-4755-5p	CLIP-seq
MIRT1053735	hsa-miR-4780	CLIP-seq
MIRT1053736	hsa-miR-623	CLIP-seq
MIRT1053737	hsa-miR-647	CLIP-seq
MIRT1053738	hsa-miR-762	CLIP-seq
MIRT2012197	hsa-miR-656	CLIP-seq
MIRT2244584	hsa-miR-1827	CLIP-seq
MIRT1053721	hsa-miR-204	CLIP-seq
MIRT1053722	hsa-miR-211	CLIP-seq
MIRT1053724	hsa-miR-4446-5p	CLIP-seq
MIRT2244585	hsa-miR-4649-3p	CLIP-seq
MIRT1053730	hsa-miR-4663	CLIP-seq
MIRT1053732	hsa-miR-4687-3p	CLIP-seq
MIRT1053734	hsa-miR-4755-5p	CLIP-seq
MIRT1053735	hsa-miR-4780	CLIP-seq
MIRT1053736	hsa-miR-623	CLIP-seq
MIRT1053737	hsa-miR-647	CLIP-seq
MIRT2451348	hsa-miR-3619-3p	CLIP-seq
MIRT2451349	hsa-miR-3661	CLIP-seq
MIRT2451350	hsa-miR-3690	CLIP-seq
MIRT2451351	hsa-miR-4776-5p	CLIP-seq
MIRT2451352	hsa-miR-619	CLIP-seq
MIRT2451353	hsa-miR-631	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000785	Component	Chromatin	ISA
GO:0000978	Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA
GO:0000981	Function	DNA-binding transcription factor activity, RNA polymerase II-specific	IEA
GO:0000981	Function	DNA-binding transcription factor activity, RNA polymerase II-specific	ISA
GO:0003677	Function	DNA binding	IEA
GO:0003700	Function	DNA-binding transcription factor activity	IBA
GO:0005515	Function	Protein binding	IPI	18305892, 22615398, 22761572, 25416956, 31515488, 32296183
GO:0005634	Component	Nucleus	IBA
GO:0005634	Component	Nucleus	IEA
GO:0005654	Component	Nucleoplasm	IDA
GO:0005654	Component	Nucleoplasm	IEA
GO:0006351	Process	DNA-templated transcription	IEA
GO:0006355	Process	Regulation of DNA-templated transcription	IEA
GO:0006357	Process	Regulation of transcription by RNA polymerase II	IBA
GO:0009952	Process	Anterior/posterior pattern specification	IBA
GO:0009952	Process	Anterior/posterior pattern specification	IEA
GO:0009954	Process	Proximal/distal pattern formation	IBA
GO:0016235	Component	Aggresome	IDA
GO:0017053	Component	Transcription repressor complex	IPI	22615398
GO:0045786	Process	Negative regulation of cell cycle	NAS	22615398
GO:0048704	Process	Embryonic skeletal system morphogenesis	IBA
GO:0048704	Process	Embryonic skeletal system morphogenesis	IEA
GO:0048706	Process	Embryonic skeletal system development	IEA
GO:1990837	Function	Sequence-specific double-stranded DNA binding	IDA	28473536
GO:1990837	Function	Sequence-specific double-stranded DNA binding	IEA

Other IDs

• MIM: 142971
• HGNC: 5130
• e!Ensembl: ENSG00000180806

Protein

• UniProt ID: P31274
• Protein name: Homeobox protein Hox-C9 (Homeobox protein Hox-3B)
• Protein function: Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
• PDB: 2LP0, 2MSY
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF04617	Hox9_act	1 → 179		Family
  PF00046	Homeodomain	193 → 249	Homeodomain	Domain

• Sequence:

  MSATGPISNYYVDSLISHDNEDLLASRFPATGAHPAAARPSGLVPDCSDFPSCSFAPKPA
  VFSTSWAPVPSQSSVVYHPYGPQPHLGADTRYMRTWLEPLSGAVSFPSFPAGGRHYALKP
  DAYPGRRADCGPGEGRSYPDYMYGSPGELRDRAPQTLPSPEADALAGSKHKEEKADLDPS
  NPVANWIHARSTRKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWF
  QNRRMKMKKMNKEKTDKEQS

• Sequence length: 260