Hoxd9 (homeo box D9) - Rat Genome Database

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Pathways
Gene: Hoxd9 (homeo box D9) Rattus norvegicus
Analyze
Symbol: Hoxd9
Name: homeo box D9
RGD ID: 1582908
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal system morphogenesis; negative regulation of transcription by RNA polymerase II; and regionalization. Predicted to act upstream of or within several processes, including embryonic skeletal system development; limb morphogenesis; and peripheral nervous system neuron development. Predicted to be located in nucleolus and nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXD9 (homeobox D9); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; dibutyl phthalate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: homeobox Hox-D9; homeobox protein Hox-D9; LOC366083; LOC688999; MGC189507; similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8380,008,006 - 80,010,186 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl380,007,668 - 80,010,171 (+)EnsemblGRCr8
mRatBN7.2359,600,575 - 59,602,755 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl359,600,575 - 59,602,754 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx362,987,853 - 62,990,034 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0371,571,498 - 71,573,679 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0369,336,566 - 69,338,747 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0361,620,192 - 61,622,360 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl361,620,192 - 61,622,359 (+)Ensemblrn6Rnor6.0
Rnor_5.0368,086,528 - 68,088,228 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera359,122,389 - 59,124,566 (+)NCBICelera
Cytogenetic Map3q23NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)

References

References - curated
# 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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1756725   PMID:2568311   PMID:8625797   PMID:9892669   PMID:10642795   PMID:12477932   PMID:17626057   PMID:23760953   PMID:34288810  


Genomics

Comparative Map Data
Hoxd9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8380,008,006 - 80,010,186 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl380,007,668 - 80,010,171 (+)EnsemblGRCr8
mRatBN7.2359,600,575 - 59,602,755 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl359,600,575 - 59,602,754 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx362,987,853 - 62,990,034 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0371,571,498 - 71,573,679 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0369,336,566 - 69,338,747 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0361,620,192 - 61,622,360 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl361,620,192 - 61,622,359 (+)Ensemblrn6Rnor6.0
Rnor_5.0368,086,528 - 68,088,228 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera359,122,389 - 59,124,566 (+)NCBICelera
Cytogenetic Map3q23NCBI
HOXD9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382176,122,719 - 176,124,937 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2176,122,719 - 176,124,937 (+)Ensemblhg38GRCh38
GRCh372176,987,447 - 176,989,665 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362176,695,334 - 176,697,770 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342176,812,594 - 176,815,031NCBI
Celera2170,596,564 - 170,598,796 (+)NCBICelera
Cytogenetic Map2q31.1NCBI
HuRef2168,864,337 - 168,866,570 (+)NCBIHuRef
CHM1_12176,993,281 - 176,995,514 (+)NCBICHM1_1
T2T-CHM13v2.02176,610,853 - 176,613,074 (+)NCBIT2T-CHM13v2.0
Hoxd9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39274,528,107 - 74,530,552 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl274,528,071 - 74,530,552 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38274,697,763 - 74,700,208 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl274,697,727 - 74,700,208 (+)Ensemblmm10GRCm38
MGSCv37274,535,820 - 74,538,265 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36274,498,602 - 74,501,047 (+)NCBIMGSCv36mm8
Celera276,367,886 - 76,370,331 (+)NCBICelera
Cytogenetic Map2C3NCBI
cM Map244.13NCBI
Hoxd9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495545112,619,722 - 12,621,320 (+)NCBIChiLan1.0ChiLan1.0
HOXD9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21378,789,839 - 78,792,454 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B78,804,897 - 78,807,918 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B63,401,813 - 63,404,731 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B181,111,939 - 181,114,176 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B181,112,002 - 181,113,415 (+)EnsemblpanPan2panpan1.1
HOXD9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13619,929,479 - 19,932,861 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3619,940,306 - 19,942,693 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03620,071,501 - 20,073,894 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3620,057,613 - 20,081,260 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13620,145,703 - 20,148,083 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03620,146,398 - 20,148,785 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03620,258,243 - 20,260,602 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hoxd9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303137,055,383 - 137,058,040 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365095,609,744 - 5,611,943 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365095,609,744 - 5,611,943 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXD9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1581,924,142 - 81,926,274 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11581,910,415 - 81,926,276 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
HOXD9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11061,695,065 - 61,699,936 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1061,697,271 - 61,699,933 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040137,910,535 - 137,913,594 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxd9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478713,249,946 - 13,265,627 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462478713,263,020 - 13,265,538 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Hoxd9
12 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:388
Count of miRNA genes:232
Interacting mature miRNAs:267
Transcripts:ENSRNOT00000065426
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35378111291609953Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33068464275684642Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32824968773249687Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1582249Bw77Body weight QTL 773.20.0025epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)35318459364655484Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33142640370668733Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33142640370668733Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33142640370668733Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33142640370668733Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33142640370668733Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35318469289878207Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32793691972936919Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32846857173468571Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32846857173468571Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33068464275684642Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33370334761017857Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2302276Bw82Body weight QTL 824.32body mass (VT:0001259)body weight (CMO:0000012)33945463762951183Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)33851780383517803Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32824968773249687Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32824968773249687Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31695470861954708Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32824968773249687Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33142640370668733Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat

Markers in Region
D2Mit38  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8380,007,348 - 80,007,520 (+)Marker Load Pipeline
mRatBN7.2359,599,917 - 59,600,088 (+)MAPPERmRatBN7.2
Rnor_6.0361,619,535 - 61,619,705NCBIRnor6.0
Rnor_5.0368,085,871 - 68,086,041UniSTSRnor5.0
RGSC_v3.4357,311,466 - 57,311,636UniSTSRGSC3.4
Celera359,121,732 - 59,121,902UniSTS
Cytogenetic Map3q23UniSTS
RH129262  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2359,602,535 - 59,602,726 (+)MAPPERmRatBN7.2
Rnor_6.0361,622,141 - 61,622,331NCBIRnor6.0
Rnor_5.0368,088,009 - 68,088,199UniSTSRnor5.0
RGSC_v3.4357,314,291 - 57,314,481UniSTSRGSC3.4
Celera359,124,347 - 59,124,537UniSTS
Cytogenetic Map3q23UniSTS
RH139211  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2359,605,793 - 59,605,944 (+)MAPPERmRatBN7.2
Rnor_6.0361,625,403 - 61,625,553NCBIRnor6.0
Rnor_5.0368,091,271 - 68,091,421UniSTSRnor5.0
RGSC_v3.4357,317,629 - 57,317,779UniSTSRGSC3.4
Celera359,127,605 - 59,127,755UniSTS
Cytogenetic Map3q23UniSTS
Hoxd9  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8380,008,802 - 80,009,249 (+)Marker Load Pipeline
RGSC_v3.4357,313,126 - 57,313,573UniSTSRGSC3.4
Cytogenetic Map3q23UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
15 11 39 45 50 49 21 25 21 6 221 96 9 23 81 89 28

Sequence


Ensembl Acc Id: ENSRNOT00000065426   ⟹   ENSRNOP00000059218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl380,007,668 - 80,010,171 (+)Ensembl
mRatBN7.2 Ensembl359,600,575 - 59,602,754 (+)Ensembl
Rnor_6.0 Ensembl361,620,192 - 61,622,359 (+)Ensembl
RefSeq Acc Id: NM_001173469   ⟹   NP_001166940
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8380,008,006 - 80,010,186 (+)NCBI
mRatBN7.2359,600,575 - 59,602,755 (+)NCBI
Rnor_6.0361,620,192 - 61,622,360 (+)NCBI
Rnor_5.0368,086,528 - 68,088,228 (+)NCBI
Celera359,122,389 - 59,124,566 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001166940 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI69092 (Get FASTA)   NCBI Sequence Viewer  
  B5DFK3 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000059218
  ENSRNOP00000059218.4
RefSeq Acc Id: NP_001166940   ⟸   NM_001173469
- UniProtKB: B5DFK3 (UniProtKB/Swiss-Prot),   D4A2V8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000059218   ⟸   ENSRNOT00000065426
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DFK3-F1-model_v2 AlphaFold B5DFK3 1-343 view protein structure

Transcriptome

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

Promoters
RGD ID:13692149
Promoter ID:EPDNEW_R2674
Type:single initiation site
Name:Hoxd9_1
Description:homeo box D9
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0361,620,181 - 61,620,241EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1582908 AgrOrtholog
BioCyc Gene G2FUF-49331 BioCyc
Ensembl Genes ENSRNOG00000001580 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000065426 ENTREZGENE
  ENSRNOT00000065426.4 UniProtKB/Swiss-Prot
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro Abd-B_homeobox_TF UniProtKB/Swiss-Prot
  Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_CS UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Homeobox_metazoa UniProtKB/Swiss-Prot
  Hox9_activation_N UniProtKB/Swiss-Prot
KEGG Report rno:688999 UniProtKB/Swiss-Prot
NCBI Gene 688999 ENTREZGENE
PANTHER AGAP004664-PA UniProtKB/Swiss-Prot
  HOMEOBOX PROTEIN HOX-D9 UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
  Hox9_act UniProtKB/Swiss-Prot
PhenoGen Hoxd9 PhenoGen
PRINTS HOMEOBOX UniProtKB/Swiss-Prot
PROSITE HOMEOBOX_1 UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000001580 RatGTEx
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt B5DFK3 ENTREZGENE
  D4A2V8 ENTREZGENE, UniProtKB/TrEMBL
  HXD9_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Hoxd9  homeo box D9  LOC688999  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC688999  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)  RGD1561879_predicted  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4) (predicted)  Data merged from RGD:1561879 1643240 APPROVED
2006-11-19 LOC688999  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1561879_predicted  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4) (predicted)  LOC366083  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC366083  similar to Homeobox protein Hox-D8 (Hox-4.3) (Hox-5.4)      Symbol and Name status set to provisional 70820 PROVISIONAL