HOXD4 (homeobox D4) - Rat Genome Database

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Gene: HOXD4 (homeobox D4) Pan paniscus
Analyze
Symbol: HOXD4
Name: homeobox D4
RGD ID: 32726368
Description: ENCODES a protein that exhibits DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); RNA polymerase II transcription regulatory region sequence-specific DNA binding (ortholog); sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN anterior/posterior pattern specification (ortholog); embryonic organ development (ortholog); embryonic skeletal system morphogenesis (ortholog); ASSOCIATED WITH acute lymphoblastic leukemia (ortholog); genetic disease (ortholog); split hand-foot malformation 5 (ortholog); FOUND IN cell junction (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein Hox-D4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21378,803,640 - 78,820,715 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B78,834,014 - 78,838,533 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B63,429,084 - 63,432,972 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1 Ensembl2B181,140,175 - 181,141,484 (+)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HOXD4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21378,803,640 - 78,820,715 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B78,834,014 - 78,838,533 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B63,429,084 - 63,432,972 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1 Ensembl2B181,140,175 - 181,141,484 (+)Ensemblpanpan1.1panPan2
HOXD4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382176,151,550 - 176,153,226 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2176,151,550 - 176,153,226 (+)EnsemblGRCh38hg38GRCh38
GRCh372177,016,278 - 177,017,954 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362176,724,359 - 176,726,197 (+)NCBINCBI36Build 36hg18NCBI36
Build 342176,841,619 - 176,843,454NCBI
Celera2170,625,292 - 170,627,130 (+)NCBICelera
Cytogenetic Map2q31.1NCBI
HuRef2168,892,961 - 168,894,799 (+)NCBIHuRef
CHM1_12177,021,982 - 177,023,820 (+)NCBICHM1_1
T2T-CHM13v2.02176,637,994 - 176,641,368 (+)NCBIT2T-CHM13v2.0
Hoxd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39274,552,322 - 74,559,504 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl274,542,273 - 74,559,504 (+)EnsemblGRCm39 Ensembl
GRCm38274,721,978 - 74,729,160 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl274,711,929 - 74,729,160 (+)EnsemblGRCm38mm10GRCm38
MGSCv37274,560,035 - 74,567,217 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36274,522,817 - 74,529,999 (+)NCBIMGSCv36mm8
Celera276,392,107 - 76,399,289 (+)NCBICelera
Cytogenetic Map2C3NCBI
cM Map244.13NCBI
Hoxd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8380,021,886 - 80,041,462 (+)NCBIGRCr8
mRatBN7.2359,614,464 - 59,634,042 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl359,614,464 - 59,631,528 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx363,001,717 - 63,018,774 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0371,585,362 - 71,602,413 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0369,350,424 - 69,367,480 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0361,634,005 - 61,653,581 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl361,634,005 - 61,651,056 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0368,099,689 - 68,119,265 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4357,326,880 - 57,343,942 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1357,233,172 - 57,240,314 (+)NCBI
Celera359,135,961 - 59,152,998 (+)NCBICelera
Cytogenetic Map3q23NCBI
Hoxd4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540320,510,364 - 20,526,353 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540320,510,364 - 20,526,564 (-)NCBIChiLan1.0ChiLan1.0
HOXD4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ROS_Cfam_1.03620,098,858 - 20,105,489 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3620,101,074 - 20,102,318 (+)EnsemblROS_Cfam_1.0 Ensembl
Hoxd4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303137,083,433 - 137,089,299 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365095,637,600 - 5,640,917 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365095,637,600 - 5,640,335 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXD4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11061,719,985 - 61,731,371 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1061,727,026 - 61,728,332 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040137,878,916 - 137,898,282 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxd4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478713,290,703 - 13,296,311 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478713,290,250 - 13,296,315 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSPPAT00000046471   ⟹   ENSPPAP00000023646
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2B181,140,175 - 181,141,484 (+)Ensembl
RefSeq Acc Id: XM_034954563   ⟹   XP_034810454
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21378,803,640 - 78,820,715 (+)NCBI
NHGRI_mPanPan12B78,834,014 - 78,838,533 (+)NCBI
Mhudiblu_PPA_v02B63,429,084 - 63,432,972 (+)NCBI
Protein Sequences
Protein RefSeqs XP_034810454 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABM54208 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000023646.1
Reference Protein Sequences
RefSeq Acc Id: XP_034810454   ⟸   XM_034954563
- UniProtKB: A1YFY3 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: ENSPPAP00000023646   ⟸   ENSPPAT00000046471


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000034992 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSPPAT00000046471.1 UniProtKB/Swiss-Prot
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_antennapedia UniProtKB/Swiss-Prot
  Homeobox_Antennapedia_CS UniProtKB/Swiss-Prot
  Homeobox_CS UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Homeobox_metazoa UniProtKB/Swiss-Prot
NCBI Gene HOXD4 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-D4 UniProtKB/Swiss-Prot
  HOMEOTIC PROTEIN DEFORMED UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
PRINTS ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX UniProtKB/Swiss-Prot
PROSITE ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX_1 UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt A1YFY3 ENTREZGENE, UniProtKB/Swiss-Prot