Hoxa1 (homeobox A1) - Rat Genome Database

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Gene: Hoxa1 (homeobox A1) Rattus norvegicus
Analyze
Symbol: Hoxa1
Name: homeobox A1
RGD ID: 11414885
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in several processes, including abducens nerve formation; embryonic organ morphogenesis; and optokinetic behavior. Predicted to act upstream of or within several processes, including cellular response to ethanol; cellular response to retinoic acid; and nervous system development. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Athabaskan brainstem dysgenesis syndrome and autistic disorder. Orthologous to human HOXA1 (homeobox A1); INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; alendronic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeo box A1; homeobox A1-like; homeobox protein Hox-A1; Hoxa1l; NEWGENE_2812
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8482,586,505 - 82,589,209 (-)NCBIGRCr8
mRatBN7.2481,255,814 - 81,258,587 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,255,883 - 81,258,504 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx486,478,552 - 86,480,352 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,253,945 - 82,255,745 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,681,027 - 80,682,833 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,124,358 - 82,127,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,125,406 - 82,127,066 (-)EnsemblRnor6.0rn6Rnor6.0
Celera476,147,124 - 76,149,948 (-)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-anisomycin  (ISO)
(-)-demecolcine  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-nonylphenol  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
6-bromoindirubin-3'-oxime  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arotinoid acid  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bucladesine  (ISO)
butylated hydroxyanisole  (ISO)
cadmium dichloride  (ISO)
camptothecin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
CHIR 99021  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
citral  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cortisol  (ISO)
cyclophosphamide  (ISO)
D-gluconic acid  (EXP)
decabromodiphenyl ether  (EXP)
deoxycholic acid  (EXP)
dibutyl phthalate  (ISO)
diethylstilbestrol  (EXP,ISO)
dimethylarsinic acid  (EXP)
dioxygen  (ISO)
dipentyl phthalate  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (ISO)
flusilazole  (EXP,ISO)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
geranial  (ISO)
hexaconazole  (ISO)
hydrogen peroxide  (ISO)
kenpaullone  (ISO)
L-ascorbic acid 2-phosphate  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
medroxyprogesterone acetate  (ISO)
methoxyacetic acid  (ISO)
methylisothiazolinone  (ISO)
N-nitrosodiethylamine  (EXP)
nickel sulfate  (ISO)
niclosamide  (ISO)
nitrofen  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
pirinixic acid  (ISO)
raloxifene  (EXP)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
testosterone  (ISO)
titanium dioxide  (ISO)
triadimefon  (ISO)
triclosan  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
WIN 18446  (ISO)
XAV939  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IEA)

References

References - curated
# Reference Title Reference Citation
1. Hox-1.6: a mouse homeo-box-containing gene member of the Hox-1 complex. Baron A, etal., EMBO J 1987 Oct;6(10):2977-86.
2. The clinical spectrum of homozygous HOXA1 mutations. Bosley TM, etal., Am J Med Genet A. 2008 May 15;146A(10):1235-40. doi: 10.1002/ajmg.a.32262.
3. Association between the HOXA1 A218G polymorphism and increased head circumference in patients with autism. Conciatori M, etal., Biol Psychiatry 2004 Feb 15;55(4):413-9.
4. No association between allelic variants of HOXA1/HOXB1 and autism. Gallagher L, etal., Am J Med Genet B Neuropsychiatr Genet. 2004 Jan 1;124B(1):64-7.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:8102800   PMID:9806922   PMID:10529420   PMID:11840501   PMID:15057822   PMID:15367676   PMID:15465489   PMID:15632090   PMID:15665309   PMID:16155570   PMID:18787068   PMID:19091803  
PMID:20339309   PMID:21516116   PMID:23332764   PMID:23723417   PMID:25416956   PMID:30886144   PMID:33930933  


Genomics

Comparative Map Data
Hoxa1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8482,586,505 - 82,589,209 (-)NCBIGRCr8
mRatBN7.2481,255,814 - 81,258,587 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,255,883 - 81,258,504 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx486,478,552 - 86,480,352 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,253,945 - 82,255,745 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,681,027 - 80,682,833 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,124,358 - 82,127,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,125,406 - 82,127,066 (-)EnsemblRnor6.0rn6Rnor6.0
Celera476,147,124 - 76,149,948 (-)NCBICelera
Cytogenetic Map4q24NCBI
HOXA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38727,092,993 - 27,096,000 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl727,092,993 - 27,096,000 (-)EnsemblGRCh38hg38GRCh38
GRCh37727,132,612 - 27,135,619 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36727,099,137 - 27,102,150 (-)NCBINCBI36Build 36hg18NCBI36
Build 34726,905,855 - 26,908,834NCBI
Celera727,121,549 - 27,124,562 (-)NCBICelera
Cytogenetic Map7p15.2NCBI
HuRef727,013,203 - 27,016,216 (-)NCBIHuRef
CHM1_1727,132,309 - 27,135,322 (-)NCBICHM1_1
T2T-CHM13v2.0727,228,895 - 27,231,899 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2727,183,765 - 27,186,778 (-)NCBI
Hoxa1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,132,573 - 52,135,299 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl652,132,570 - 52,135,297 (-)EnsemblGRCm39 Ensembl
GRCm38652,155,367 - 52,160,007 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,155,590 - 52,158,317 (-)EnsemblGRCm38mm10GRCm38
MGSCv37652,105,366 - 52,108,316 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36652,084,950 - 52,087,900 (-)NCBIMGSCv36mm8
Celera652,677,008 - 52,679,958 (-)NCBICelera
Cytogenetic Map6B3NCBI
cM Map625.4NCBI
Hoxa1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541028,787,817 - 28,790,962 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541028,788,245 - 28,790,971 (-)NCBIChiLan1.0ChiLan1.0
HOXA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2631,922,434 - 31,925,259 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1780,246,850 - 80,249,860 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0727,737,432 - 27,740,442 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1727,336,737 - 27,339,747 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl727,335,710 - 27,339,747 (-)Ensemblpanpan1.1panPan2
HOXA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11440,267,033 - 40,272,212 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1440,267,528 - 40,269,681 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1439,698,088 - 39,703,711 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01440,205,795 - 40,211,418 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1440,206,290 - 40,208,443 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11440,319,907 - 40,325,530 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01440,004,976 - 40,010,599 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01440,363,561 - 40,369,177 (-)NCBIUU_Cfam_GSD_1.0
Hoxa1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511884,509,768 - 84,512,994 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364783,721,662 - 3,724,433 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364783,721,662 - 3,724,471 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1845,477,461 - 45,480,152 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11845,477,561 - 45,480,306 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21850,110,695 - 50,113,440 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12131,272,410 - 31,275,503 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2131,272,889 - 31,275,551 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604273,458,340 - 73,461,050 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxa1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247393,508,838 - 3,511,864 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247393,509,020 - 3,511,890 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hoxa1
5 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45711443281266970Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45843213392991462Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)460220938105220938Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)460220938105220938Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)460928534105928534Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658103194791Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658115089733Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)462277855128289560Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)462879517107879517Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46293326987483707Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)46293350882490359Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in mean arterial blood pressure (CMO:0002035)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in systolic blood pressure (CMO:0000747)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in pulse pressure (CMO:0001882)462933508114921294Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)462933508114921294Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)46588210796130297Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)470808386115808386Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)470808386115808386Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473169846132642728Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)473630210118630210Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)473630210118630210Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)478878504123878504Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)478881294117676292Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)47888281783007655Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)47888281783007655Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)47888281783007655Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)47888281783007655Rat
61364Iddm2Insulin dependent diabetes mellitus QTL 2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478885890102684881Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)480694870125694870Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)481006124120102625Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)481192555126192555Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system respiratory system
High
Medium
Low 4 4 4 7
Below cutoff 1 19 18 16 1 16 8 23 13 7

Sequence


RefSeq Acc Id: ENSRNOT00000007807   ⟹   ENSRNOP00000007807
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl481,256,686 - 81,258,504 (-)Ensembl
Rnor_6.0 Ensembl482,125,406 - 82,127,066 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083658   ⟹   ENSRNOP00000071447
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl481,255,883 - 81,258,494 (-)Ensembl
Rnor_6.0 Ensembl482,126,438 - 82,127,051 (-)Ensembl
RefSeq Acc Id: NM_001309364   ⟹   NP_001296293
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8482,586,505 - 82,589,209 (-)NCBI
mRatBN7.2481,255,883 - 81,258,587 (-)NCBI
Sequence:
RefSeq Acc Id: NM_013075   ⟹   NP_037207
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8482,586,505 - 82,589,209 (-)NCBI
mRatBN7.2481,255,883 - 81,258,587 (-)NCBI
Sequence:
RefSeq Acc Id: ENSRNOP00000007807   ⟸   ENSRNOT00000007807
RefSeq Acc Id: ENSRNOP00000071447   ⟸   ENSRNOT00000083658
RefSeq Acc Id: NP_001296293   ⟸   NM_001309364
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K0H5 (UniProtKB/TrEMBL),   A6K0Q0 (UniProtKB/TrEMBL),   O08657 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_037207   ⟸   NM_013075
- Peptide Label: isoform 1
- UniProtKB: O08656 (UniProtKB/Swiss-Prot),   A6K0P9 (UniProtKB/TrEMBL),   G3V6R3 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O08656-F1-model_v2 AlphaFold O08656 1-333 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:11414885 AgrOrtholog
BioCyc Gene G2FUF-44830 BioCyc
Ensembl Genes ENSRNOG00000005628 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000007807 ENTREZGENE
  ENSRNOT00000007807.3 UniProtKB/TrEMBL
  ENSRNOT00000083658 ENTREZGENE
  ENSRNOT00000083658.2 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_metazoa UniProtKB/TrEMBL
  HXA1/B1/D1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:103690132 UniProtKB/TrEMBL
NCBI Gene Hoxa1 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-A1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR45946 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hoxa1 PhenoGen
PRINTS HOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005628 RatGTEx
SMART HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K0H5 ENTREZGENE, UniProtKB/TrEMBL
  A6K0P9 ENTREZGENE, UniProtKB/TrEMBL
  A6K0Q0 ENTREZGENE, UniProtKB/TrEMBL
  G3V6R3 ENTREZGENE, UniProtKB/TrEMBL
  HXA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  O08657 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-10 Hoxa1  homeobox A1  Hoxa1l  homeobox A1-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-02-10 Hoxa1l  homeobox A1-like  Hoxa1  homeo box A1  Data merged from RGD:2812 737654 PROVISIONAL
2017-02-10 Hoxa1l  homeobox A1-like  NEWGENE_2812  homeobox A1  Name and Symbol changed 629549 APPROVED
2002-06-10 Hoxa1  Homeo box A1      Symbol and Name status set to approved 70586 APPROVED