Hoxd8 homeobox D8 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hoxd8provided by MGI
Official Full Name: homeobox D8provided by MGI
Primary source: MGI:MGI:96209
See related: Ensembl:ENSMUSG00000027102 AllianceGenome:MGI:96209
Gene type: protein coding
RefSeq status: VALIDATED
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-4.3; Hox-5.4; 4921540P06Rik
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within anterior/posterior pattern specification; negative regulation of transcription by RNA polymerase II; and skeletal system morphogenesis. Predicted to be active in nucleus. Is expressed in several structures, including embryo mesenchyme; genitourinary system; limb; limb bud; and nervous system. Orthologous to human HOXD8 (homeobox D8). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in genital fat pad adult (RPKM 25.2), ovary adult (RPKM 21.0) and 10 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 C3; 2 44.13 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (74534973..74538277)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (74704615..74707933)

Chromosome 2 - NC_000068.8 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?

HOXD8 suppresses renal cell carcinoma growth by upregulating SHMT1 expression.
Title: HOXD8 suppresses renal cell carcinoma growth by upregulating SHMT1 expression.
Prox1 and HoxD8 play important roles in the maturation and maintenance of lymphatic vessels.
Title: Identification of targets of Prox1 during in vitro vascular differentiation from embryonic stem cells: functional roles of HoxD8 in lymphangiogenesis.
Hoxd8 is increased in mid-gestational wounds compared with late-gestational control skin
Title: Homeobox genes Hoxd3 and Hoxd8 are differentially expressed in fetal mouse excisional wounds.

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Variation

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Alleles

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

Targeted (1) 1 citation

General gene information

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Markers

NoName (e-PCR)
- UniSTS:494135

Hoxd8 (e-PCR), detects polymorphism
- UniSTS:536673

NoName (e-PCR)
- UniSTS:489613

RH135839 (e-PCR)
- UniSTS:209837

Hoxd8 (e-PCR), detects polymorphism
- UniSTS:547245

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology 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 transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior/posterior pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skeletal system morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal system morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: homeobox protein Hox-D8

Names: homeo box D8; homeobox protein Hox-4.3; homeobox protein Hox-5.4

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_001290730.2 → NP_001277659.1 homeobox protein Hox-D8 isoform b

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' terminal exon, compared to variant 1, resulting in an isoform (b) that is 1 aa shorter than isoform a.

Source sequence(s)

AL928644

Consensus CDS

CCDS71077.1

UniProtKB/TrEMBL

A2ASN1

Related

ENSMUSP00000088094.5, ENSMUST00000074721.6

Conserved Domains (2) summary

smart00389
Location:194 → 250

HOX; Homeodomain

COG5576
Location:139 → 271

COG5576; Homeodomain-containing transcription factor [Transcription]
NM_001290731.2 → NP_001277660.1 homeobox protein Hox-D8 isoform c

Status: VALIDATED

Description

Transcript Variant: This variant (3) contains an alternate 5' terminal exon, and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a.

Source sequence(s)

AL928644

Consensus CDS

CCDS79809.1

UniProtKB/TrEMBL

F6W963

Related

ENSMUSP00000118904.3, ENSMUST00000151380.2

Conserved Domains (1) summary

pfam00046
Location:17 → 69

Homeobox; Homeobox domain
NM_008276.4 → NP_032302.2 homeobox protein Hox-D8 isoform a

See identical proteins and their annotated locations for NP_032302.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).

Source sequence(s)

AL928644

Consensus CDS

CCDS16143.1

UniProtKB/Swiss-Prot

A2ASN2, P23463

Related

ENSMUSP00000019749.4, ENSMUST00000019749.4

Conserved Domains (2) summary

COG5576
Location:139 → 272

COG5576; Homeodomain-containing transcription factor [Transcription]

pfam00046
Location:199 → 251

Homeobox; Homeobox domain