Hoxc5 homeobox C5 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hoxc5provided by MGI
Official Full Name: homeobox C5provided by MGI
Primary source: MGI:MGI:96196
See related: Ensembl:ENSMUSG00000022485 AllianceGenome:MGI:96196
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-3.4; Hox-6.2
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific 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 development. Predicted to be located in cell junction and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; embryo mesenchyme; genitourinary system; gut; and respiratory system. Orthologous to human HOXC5 (homeobox C5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in ovary adult (RPKM 4.7), genital fat pad adult (RPKM 4.5) and 17 other tissues See more
Orthologs: human all
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Genomic context

Location:: 15 F3; 15 58.07 cM

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	15	NC_000081.7 (102922440..102925861)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	15	NC_000081.6 (103014008..103017429)

Chromosome 15 - NC_000081.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Late Hoxc5 removal preserves phrenic motor columnar organization but depletes phrenic motor column number and branches.
Title: Sustained Hox5 gene activity is required for respiratory motor neuron development.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Hoxc5 (e-PCR), detects polymorphism
- UniSTS:530690

UniSTS:488264 (e-PCR)
- UniSTS:488264

Hoxc5 (e-PCR), detects polymorphism
- UniSTS:536662

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	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic skeletal system development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell junction	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

General protein information

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Preferred Names: homeobox protein Hox-C5

Names: homeo box C5; homeobox protein Hox-3.4; homeobox protein Hox-6.2

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)

NM_175730.5 → NP_783857.1 homeobox protein Hox-C5

See identical proteins and their annotated locations for NP_783857.1

Status: PROVISIONAL

Source sequence(s)

AC021667

Consensus CDS

CCDS27896.1

UniProtKB/Swiss-Prot

P32043, Q8BJW4

Related

ENSMUSP00000001709.3, ENSMUST00000001709.3

Conserved Domains (2) summary

COG5373
Location:65 → 142

COG5373; Uncharacterized membrane protein [Function unknown]

pfam00046
Location:158 → 212

Homeobox; Homeobox domain