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Hoxc9 homeobox C9 [ Mus musculus (house mouse) ]

Gene ID: 15427, updated on 26-Sep-2022

Summary

Official Symbol
Hoxc9provided by MGI
Official Full Name
homeobox C9provided by MGI
Primary source
MGI:MGI:96199
See related
Ensembl:ENSMUSG00000036139 AllianceGenome:MGI:96199
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Hox-3.2
Summary
Predicted to enable DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within anterior/posterior pattern specification and embryonic skeletal system morphogenesis. Predicted to be located in aggresome and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including genitourinary system; intestine; limb; paraxial mesenchyme; and spinal cord. Orthologous to human HOXC9 (homeobox C9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in ovary adult (RPKM 7.9), mammary gland adult (RPKM 7.9) and 7 other tissues See more
Orthologs
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Genomic context

See Hoxc9 in Genome Data Viewer
Location:
15 F3; 15 58.04 cM
Exon count:
4
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (102885467..102893324)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (102977032..102984444)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene homeobox C10 Neighboring gene microRNA 196a-2 Neighboring gene predicted gene, 36878 Neighboring gene homeobox C8 Neighboring gene predicted gene, 29905

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in aggresome ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
homeobox protein Hox-C9
Names
homeo box C9
homeobox protein Hox-3.2

NCBI Reference Sequences (RefSeq)

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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)

  1. NM_008272.3NP_032298.1  homeobox protein Hox-C9

    See identical proteins and their annotated locations for NP_032298.1

    Status: PROVISIONAL

    Source sequence(s)
    AC021667
    Consensus CDS
    CCDS27893.1
    UniProtKB/Swiss-Prot
    P09633
    UniProtKB/TrEMBL
    A0A6P5R3N6, A0A8C6MTM6
    Related
    ENSMUSP00000001706.7, ENSMUST00000001706.7
    Conserved Domains (2) summary
    smart00389
    Location:192241
    HOX; Homeodomain
    pfam04617
    Location:1179
    Hox9_act; Hox9 activation region

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    102885467..102893324
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036159164.1XP_036015057.1  homeobox protein Hox-C9 isoform X1

    UniProtKB/Swiss-Prot
    P09633
    UniProtKB/TrEMBL
    A0A6P5R3N6, A0A8C6MTM6
    Conserved Domains (2) summary
    smart00389
    Location:192241
    HOX; Homeodomain
    pfam04617
    Location:1179
    Hox9_act; Hox9 activation region