Hoxd4 (homeo box D4) - Rat Genome Database

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Gene: Hoxd4 (homeo box D4) Rattus norvegicus
Analyze
Symbol: Hoxd4
Name: homeo box D4
RGD ID: 1309690
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in anterior/posterior pattern specification; embryonic skeletal system morphogenesis; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within stem cell differentiation. Predicted to be located in cell junction. Predicted to be active in nucleoplasm. Orthologous to human HOXD4 (homeobox D4); INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: homeobox protein Hox-D4; LOC288153
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4Ratacute lymphoblastic leukemia  ISOHOXD4 (Homo sapiens)8554872ClinVar Annotator: match by term: Leukemia more ...ClinVarPMID:15776434
Hoxd4Ratsplit hand-foot malformation 5  ISOHOXD4 (Homo sapiens)8554872ClinVar Annotator: match by term: Split hand-foot malformation 5ClinVarPMID:25741868
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4Ratacute lymphoblastic leukemia  ISOHOXD4 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:15776434

1 to 20 of 53 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4Rat1,2-dimethylhydrazine decreases expressionISOHoxd4 (Mus musculus)64804641 and 2-Dimethylhydrazine results in decreased expression of HOXD4 mRNACTDPMID:22206623
Hoxd4Rat1,2-dimethylhydrazine multiple interactionsISOHoxd4 (Mus musculus)6480464[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in decreased expression of HOXD4 mRNACTDPMID:22206623
Hoxd4Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOHoxd4 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of HOXD4 mRNACTDPMID:24058054
Hoxd4Ratacetaldehyde affects expressionISOHoxd4 (Mus musculus)6480464Acetaldehyde affects the expression of HOXD4 mRNACTDPMID:22634333
Hoxd4Rataflatoxin B1 decreases methylationISOHOXD4 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of HOXD4 geneCTDPMID:27153756
Hoxd4Ratall-trans-retinoic acid increases expressionISOHOXD4 (Homo sapiens)6480464Tretinoin results in increased expression of HOXD4 mRNACTDPMID:21934132
Hoxd4Ratall-trans-retinoic acid increases expressionISOHoxd4 (Mus musculus)6480464Tretinoin results in increased expression of HOXD4 mRNACTDPMID:16757478 and PMID:19897914
Hoxd4Ratall-trans-retinoic acid multiple interactionsISOHoxd4 (Mus musculus)6480464Tretinoin promotes the reaction [YY1 protein binds to HOXD4 promoter]CTDPMID:16757478
Hoxd4Ratamosite asbestos decreases methylationISOHOXD4 (Homo sapiens)6480464Asbestos and Amosite results in decreased methylation of HOXD4 promoterCTDPMID:29626692
Hoxd4Ratamphotericin B decreases expressionISOHOXD4 (Homo sapiens)6480464Amphotericin B analog results in decreased expression of HOXD4 mRNACTDPMID:28534445
Hoxd4Ratantirheumatic drug increases expressionISOHOXD4 (Homo sapiens)6480464Antirheumatic Agents results in increased expression of HOXD4 mRNACTDPMID:24449571
Hoxd4RatAroclor 1254 decreases expressionISOHoxd4 (Mus musculus)6480464Chlorodiphenyl (54% Chlorine) results in decreased expression of HOXD4 mRNACTDPMID:23650126
Hoxd4Ratarotinoid acid multiple interactionsISOHOXD4 (Homo sapiens)6480464[4-(2-(5 more ...CTDPMID:34480604
Hoxd4Ratarsenous acid increases expressionISOHoxd4 (Mus musculus)6480464Arsenic Trioxide results in increased expression of HOXD4 mRNACTDPMID:15073043
Hoxd4Ratbelinostat increases expressionISOHOXD4 (Homo sapiens)6480464belinostat results in increased expression of HOXD4 mRNACTDPMID:27188386
Hoxd4Ratbenzo[a]pyrene affects methylationISOHOXD4 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of HOXD4 3' UTR and Benzo(a)pyrene affects the methylation of HOXD4 promoterCTDPMID:27901495
Hoxd4Ratbenzo[a]pyrene decreases methylationISOHOXD4 (Homo sapiens)6480464Benzo(a)pyrene results in decreased methylation of HOXD4 exonCTDPMID:27901495
Hoxd4Ratbis(2-chloroethyl) sulfide increases expressionISOHoxd4 (Mus musculus)6480464Mustard Gas results in increased expression of HOXD4 mRNACTDPMID:15674843
Hoxd4Ratbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of HOXD4 mRNACTDPMID:25181051
Hoxd4Ratbisphenol A decreases expressionISOHoxd4 (Mus musculus)6480464bisphenol A results in decreased expression of HOXD4 mRNACTDPMID:32156529

1 to 20 of 53 rows

Biological Process
1 to 15 of 15 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4Ratanterior/posterior pattern specification acts_upstream_of_or_withinIEAUniProtKB:P10628 and ensembl:ENSMUSP000000479491600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratanterior/posterior pattern specification acts_upstream_of_or_withinISOHoxd4 (Mus musculus)1624291MGI:2151488 more ...RGDPMID:7628700 and PMID:7750651
Hoxd4Ratanterior/posterior pattern specification involved_inIBAMGI:96176 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4Ratembryonic organ development involved_inISOHOXD4 (Homo sapiens)1624291 PMID:2879245RGDPMID:2879245
Hoxd4Ratembryonic organ development involved_inIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratembryonic skeletal system morphogenesis acts_upstream_of_or_withinISOHoxd4 (Mus musculus)1624291MGI:2151488 more ...RGDPMID:7628700 and PMID:7750651
Hoxd4Ratembryonic skeletal system morphogenesis acts_upstream_of_or_withinIEAUniProtKB:P10628 and ensembl:ENSMUSP000000479491600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratembryonic skeletal system morphogenesis involved_inIBAMGI:96176 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4Ratpositive regulation of transcription by RNA polymerase II involved_inISOHOXD4 (Homo sapiens)1624291 PMID:1756725RGDPMID:1756725
Hoxd4Ratpositive regulation of transcription by RNA polymerase II involved_inIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratpositive regulation of transcription by RNA polymerase II involved_inIBAFB:FBgn0000439 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4Ratregulation of DNA-templated transcription involved_inIEAInterPro:IPR001827 more ...1600115GO_REF:0000002InterProGO_REF:0000002
Hoxd4Ratstem cell differentiation acts_upstream_of_or_withinISOHoxd4 (Mus musculus)1624291 PMID:19796622RGDPMID:19796622
Hoxd4Ratstem cell differentiation acts_upstream_of_or_withinIEAUniProtKB:P10628 and ensembl:ENSMUSP000000479491600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratsystem development involved_inIEAARBA:ARBA000277021600115GO_REF:0000117UniProtGO_REF:0000117
1 to 15 of 15 rows

Cellular Component
1 to 9 of 9 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4Ratcell junction located_inISOHOXD4 (Homo sapiens)1624291 RGDGO_REF:0000052
Hoxd4Ratcell junction located_inIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratnucleoplasm located_inISOHOXD4 (Homo sapiens)1624291 RGDGO_REF:0000052
Hoxd4Ratnucleoplasm located_inIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratnucleoplasm is_active_inIBAPANTHER:PTN002518650 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4Ratnucleus located_inIEAInterPro:IPR0179951600115GO_REF:0000002InterProGO_REF:0000002
Hoxd4Ratnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
Hoxd4Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
Hoxd4Ratnucleus located_inIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
1 to 9 of 9 rows

Molecular Function
1 to 14 of 14 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxd4RatDNA binding enablesIEAUniProtKB-KW:KW-0238 and UniProtKB-KW:KW-03711600115GO_REF:0000043UniProtGO_REF:0000043
Hoxd4RatDNA binding enablesIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
Hoxd4RatDNA binding enablesIEAInterPro:IPR001356 more ...1600115GO_REF:0000002InterProGO_REF:0000002
Hoxd4RatDNA-binding transcription activator activity, RNA polymerase II-specific enablesISOHOXD4 (Homo sapiens)1624291 PMID:1756725RGDPMID:1756725
Hoxd4RatDNA-binding transcription activator activity, RNA polymerase II-specific enablesIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4RatDNA-binding transcription factor activity enablesIEAInterPro:IPR001827 and InterPro:IPR0179951600115GO_REF:0000002InterProGO_REF:0000002
Hoxd4RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIBAFB:FBgn0000439 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIEAInterPro:IPR0179701600115GO_REF:0000002InterProGO_REF:0000002
Hoxd4Ratprotein binding enablesISOHOXD4 (Homo sapiens)1624291UniProtKB:Q9BYU1 more ...RGDPMID:32296183
Hoxd4RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesIBAPANTHER:PTN002518650 and UniProtKB:P090171600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxd4RatRNA polymerase II transcription regulatory region sequence-specific DNA binding enablesISOHOXD4 (Homo sapiens)1624291 PMID:1756725RGDPMID:1756725
Hoxd4RatRNA polymerase II transcription regulatory region sequence-specific DNA binding enablesIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxd4Ratsequence-specific double-stranded DNA binding enablesISOHOXD4 (Homo sapiens)1624291 PMID:28473536RGDPMID:28473536
Hoxd4Ratsequence-specific double-stranded DNA binding enablesIEAUniProtKB:P09016 and ensembl:ENSP000003025481600115GO_REF:0000107EnsemblGO_REF:0000107
1 to 14 of 14 rows


#
Reference Title
Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:1756725   PMID:7628700   PMID:7750651   PMID:19796622  



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
(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
(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
(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
(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

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Variants in Hoxd4
38 total Variants

Predicted Target Of
Summary Value
Count of predictions:99
Count of miRNA genes:75
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000002145
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 54 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32824968773249687Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat

1 to 10 of 54 rows
UniSTS:480790  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2359,629,609 - 59,631,076 (+)MAPPERmRatBN7.2
Rnor_6.0361,649,150 - 61,650,615NCBIRnor6.0
Rnor_5.0368,114,834 - 68,116,299UniSTSRnor5.0
RGSC_v3.4357,342,025 - 57,343,490UniSTSRGSC3.4
Celera359,151,081 - 59,152,546UniSTS
Cytogenetic Map3q23UniSTS
Hoxd4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2359,630,061 - 59,630,750 (+)MAPPERmRatBN7.2
Rnor_6.0361,649,602 - 61,650,289NCBIRnor6.0
Rnor_5.0368,115,286 - 68,115,973UniSTSRnor5.0
Celera359,151,533 - 59,152,220UniSTS
Cytogenetic Map3q23UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 34 55 47 47 18 25 18 6 162 82 35 45 57 29



Ensembl Acc Id: ENSRNOT00000002145   ⟹   ENSRNOP00000002145
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl359,614,464 - 59,631,528 (+)Ensembl
Rnor_6.0 Ensembl361,634,005 - 61,651,056 (+)Ensembl
RefSeq Acc Id: NM_001105885   ⟹   NP_001099355
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8380,021,886 - 80,038,948 (+)NCBI
mRatBN7.2359,614,464 - 59,631,528 (+)NCBI
Rnor_6.0361,634,005 - 61,651,067 (+)NCBI
Rnor_5.0368,099,689 - 68,119,265 (+)NCBI
RGSC_v3.4357,326,880 - 57,343,942 (+)RGD
Celera359,135,961 - 59,152,998 (+)RGD
Sequence:
RefSeq Acc Id: XM_039104415   ⟹   XP_038960343
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8380,035,864 - 80,041,462 (+)NCBI
mRatBN7.2359,624,560 - 59,634,042 (+)NCBI
Protein RefSeqs NP_001099355 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960343 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL79186 (Get FASTA)   NCBI Sequence Viewer  
  EDL79187 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002145
  ENSRNOP00000002145.3
RefSeq Acc Id: NP_001099355   ⟸   NM_001105885
- UniProtKB: D4ACE1 (UniProtKB/TrEMBL),   A6HMD5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002145   ⟸   ENSRNOT00000002145
RefSeq Acc Id: XP_038960343   ⟸   XM_039104415
- Peptide Label: isoform X1
- UniProtKB: D4ACE1 (UniProtKB/TrEMBL),   A6HMD5 (UniProtKB/TrEMBL)
Homeobox

Name Modeler Protein Id AA Range Protein Structure
AF-D4ACE1-F1-model_v2 AlphaFold D4ACE1 1-251 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen



1 to 28 of 28 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-49327 BioCyc
Ensembl Genes ENSRNOG00000001578 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002145 ENTREZGENE
  ENSRNOT00000002145.7 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Antp_homeobox_Deformed_sf UniProtKB/TrEMBL
  Homeobox UniProtKB/TrEMBL
  Homeobox_antennapedia UniProtKB/TrEMBL
  Homeobox_Antennapedia_CS UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_region UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
KEGG Report rno:288153 UniProtKB/TrEMBL
NCBI Gene 288153 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-D4 UniProtKB/TrEMBL
  HOMEOTIC PROTEIN DEFORMED UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Hoxd4 PhenoGen
PRINTS ANTENNAPEDIA UniProtKB/TrEMBL
  HOMEOBOX UniProtKB/TrEMBL
PROSITE ANTENNAPEDIA UniProtKB/TrEMBL
  HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001578 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A6HMD5 ENTREZGENE, UniProtKB/TrEMBL
  D4ACE1 ENTREZGENE, UniProtKB/TrEMBL
1 to 28 of 28 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Hoxd4  homeo box D4   Hoxd4_predicted  homeo box D4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Hoxd4_predicted  homeo box D4 (predicted)      Symbol and Name status set to approved 70820 APPROVED