Hoxd3os1 Gene Detail

Summary

• Symbol
  Hoxd3os1
• Name
  homeobox D3, opposite strand 1
• Synonyms
  1700064D17Rik, 1700109F18Rik

• Feature Type
  antisense lncRNA gene
  BioType Conflict
  
• IDs
  MGI:1923875
  NCBI Gene: 73429
• Alliance
  genome feature page
• Transcription Start Sites
  7 TSS

Location &
Maps

• Sequence Map
  Chr2:74540388-74546474 bp, - strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 2, 44.13 cM, cytoband D
• Mapping Data
  3 experiments

Strain
Comparison

• SNPs within 2kb
  187 from dbSNP Build 142
• Strain Annotations
  31

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1923875	antisense lncRNA gene	Chr2:74532015-74546516 (-)
129S1/SvImJ	ENSMUSG00200002724	protein coding gene	Chr2:71581971-71591491 (-)
129S1/SvImJ	ENSMUSG00200004033	lncRNA gene	Chr2:71582224-71595107 (-)
A/J	ENSMUSG00195019129	protein coding gene	Chr2:71728675-71738214 (-)
A/J	ENSMUSG00195019636	lncRNA gene	Chr2:71728928-71741829 (-)
AKR/J	ENSMUSG00220002211	protein coding gene	Chr2:71693308-71702846 (-)
AKR/J	ENSMUSG00220002583	lncRNA gene	Chr2:71693561-71706461 (-)
BALB/cJ	ENSMUSG00180007085	lncRNA gene	Chr2:71682583-71695487 (-)
BALB/cJ	ENSMUSG00180006000	protein coding gene	Chr2:71682330-71691872 (-)
C3H/HeJ	ENSMUSG00175010430	protein coding gene	Chr2:71808225-71817739 (-)
C3H/HeJ	ENSMUSG00175011124	lncRNA gene	Chr2:71808478-71821353 (-)
C57BL/6NJ	ENSMUSG00215030733	lncRNA gene	Chr2:71645424-71658314 (-)
C57BL/6NJ	ENSMUSG00215013080	protein coding gene	Chr2:71645171-71654696 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0003212	antisense lncRNA gene	Chr2:69507774-69520494 (-)
CAST/EiJ	ENSTCUG00005031167	lncRNA gene	Chr2:71122334-71135281 (-)
CBA/J	ENSMUSG00210002523	lncRNA gene	Chr2:71851134-71864015 (-)
CBA/J	ENSMUSG00210002003	protein coding gene	Chr2:71850881-71860401 (-)
DBA/2J	ENSMUSG00185011541	lncRNA gene	Chr2:71686979-71699858 (-)
DBA/2J	ENSMUSG00185010334	protein coding gene	Chr2:71686726-71696244 (-)
FVB/NJ	ENSMUSG00205020378	lncRNA gene	Chr2:71138959-71151872 (-)
FVB/NJ	ENSMUSG00205013491	protein coding gene	Chr2:71138706-71148257 (-)
JF1/MsJ	ENSUMUG00000044589	lncRNA gene	Chr2:71364148-71376825 (-)
LP/J	ENSMUSG00230023961	protein coding gene	Chr2:73481559-73491090 (-)
LP/J	ENSMUSG00230026233	lncRNA gene	Chr2:73481812-73494705 (-)
NOD/ShiLtJ	ENSMUSG00190009622	protein coding gene	Chr2:71761434-71770961 (-)
NOD/ShiLtJ	ENSMUSG00190010800	lncRNA gene	Chr2:71761687-71774576 (-)
NZO/HlLtJ	ENSMUSG00225014189	protein coding gene	Chr2:81245625-81255146 (-)
NZO/HlLtJ	ENSMUSG00225015294	lncRNA gene	Chr2:81245878-81258766 (-)
PWK/PhJ	ENSLUMG00010032479	lncRNA gene	Chr2:71602472-71615174 (-)
SPRET/EiJ	ENSMSPG00010021443	lncRNA gene	Chr2:73002455-73015306 (-)
WSB/EiJ	ENSIUOG00005011659	lncRNA gene	Chr2:71804960-71817829 (-)

Homology

• Gene Tree
  Hoxd3os1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  49 phenotype references
  

• All Mutations and Alleles
  31
• Chemically induced (other)
  1
• Radiation induced
  1
• Spontaneous
  1
• Targeted
  28
• Genomic Mutations
  31 involving Hoxd3os1
• Find Mice (IMSR)
  0 strains or lines available

Expression

• Assay Results
  606
• Tissues
  8
• cDNA Data
  7
• Literature Summary
  2

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  64
• RefSeq
  1
• UniProt
  2

• Ensembl
  ENSMUSG00000052371 (Evidence)
• NCBI Gene
  73429

Representative Sequences			Length	Strain/Species
genomic	73429	NCBI Gene Model | MGI Sequence Detail	6087	C57BL/6J
transcript	NR_027899	RefSeq | MGI Sequence Detail	794	C57BL/6
polypeptide	Q8C6K5	UniProt | EBI | MGI Sequence Detail	144	Not Applicable

Protein
Information

• UniProt
  2 Sequences

Molecular
Reagents

• All nucleic 8

  cDNA 7

  Primer pair 1

  
  

  Microarray probesets 3

Other
Accession IDs

MGI:1920679

References

• Summaries
  All 67

  Developmental Gene Expression 2

  Phenotypes 49
• Earliest
  J:10491 Davisson MT, et al., The mouse mutation ulnaless on chromosome 2. J Hered. 1990 Mar-Apr;81(2):151-3
• Latest
  J:373797 Hintermann A, et al., Co-option of an ancestral cloacal regulatory landscape during digit evolution. Nature. 2025 Sep 17;

TSS for Hoxd3os1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr24628	Chr2:74546481-74546501 (-)	-17 bp
Tssr24627	Chr2:74546468-74546479 (-)	0 bp
Tssr24626	Chr2:74546364-74546371 (-)	106 bp
Tssr534	Chr2:74546346-74546351 (-)	125 bp
Tssr24625	Chr2:74546333-74546344 (-)	135 bp
Tssr533	Chr2:74546317-74546320 (-)	155 bp
Tssr24624	Chr2:74544607-74544640 (-)	1,850 bp