Atxn1 (ataxin 1) - Rat Genome Database

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Gene: Atxn1 (ataxin 1) Rattus norvegicus
Analyze
Symbol: Atxn1
Name: ataxin 1
RGD ID: 3624
Description: Predicted to enable several functions, including POZ domain binding activity; identical protein binding activity; and single-stranded RNA binding activity. Predicted to be involved in several processes, including learning or memory; negative regulation of transcription by RNA polymerase II; and social behavior. Predicted to act upstream of or within several processes, including negative regulation of insulin-like growth factor receptor signaling pathway; positive regulation of glial cell proliferation; and visual learning. Predicted to be located in cytoplasm and nucleus. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in spinocerebellar ataxia type 1. Orthologous to human ATXN1 (ataxin 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ataxin-1; RNSCA1; Sca1; spinocerebellar ataxia 1; spinocerebellar ataxia 1 homolog (human); Spinocerebellar ataxia type 1; spinocerebellar ataxia type 1 protein homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81718,943,397 - 19,354,751 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1719,208,200 - 19,356,790 (+)EnsemblGRCr8
mRatBN7.21718,737,491 - 19,142,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1718,737,533 - 19,142,360 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1718,622,877 - 19,027,380 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01720,226,714 - 20,631,212 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01718,550,018 - 18,954,499 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01719,160,986 - 19,533,814 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1719,249,952 - 19,533,814 (+)Ensemblrn6Rnor6.0
Rnor_5.01721,544,083 - 21,559,271 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01721,184,036 - 21,473,347 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41724,719,383 - 25,138,270 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1718,442,710 - 18,844,739 (+)NCBICelera
RGSC_v3.13103,267,365 - 103,268,238 (+)NCBI
Cytogenetic Map17p14NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (ISO)
(S)-colchicine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroacetaldehyde  (ISO)
chromium(6+)  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
daunorubicin  (EXP)
DDE  (ISO)
Dibutyl phosphate  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
fonofos  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
glyphosate  (EXP)
GSK-J4  (ISO)
hydrogen peroxide  (ISO)
hydroxyurea  (ISO)
ibuprofen  (ISO)
ifosfamide  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
maneb  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (ISO)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
propiconazole  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
succimer  (ISO)
sunitinib  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
thimerosal  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO,ISS)
cytosol  (ISO)
nuclear inclusion body  (ISO,ISS)
nuclear matrix  (ISO,ISS)
nucleolus  (ISO)
nucleoplasm  (ISO,ISS)
nucleus  (IBA,IEA,ISO,ISS)
postsynapse  (IEA)
protein-containing complex  (ISO)

Molecular Function

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. cDNA cloning and expression of rsca1, the rat counterpart of the human spinocerebellar ataxia type 1 gene. Gossen M, etal., Hum Mol Genet 1996 Mar;5(3):381-9.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:7647801   PMID:9097953   PMID:9353120   PMID:9651231   PMID:11001934   PMID:11136710   PMID:12757932   PMID:15016912   PMID:15514462   PMID:15615787   PMID:15893665   PMID:16713569  
PMID:17545040   PMID:17557114   PMID:18216249   PMID:18337722   PMID:19208651   PMID:20531390   PMID:20628574   PMID:22014525   PMID:25416956   PMID:28288114   PMID:31375326  


Genomics

Comparative Map Data
Atxn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81718,943,397 - 19,354,751 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1719,208,200 - 19,356,790 (+)EnsemblGRCr8
mRatBN7.21718,737,491 - 19,142,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1718,737,533 - 19,142,360 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1718,622,877 - 19,027,380 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01720,226,714 - 20,631,212 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01718,550,018 - 18,954,499 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01719,160,986 - 19,533,814 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1719,249,952 - 19,533,814 (+)Ensemblrn6Rnor6.0
Rnor_5.01721,544,083 - 21,559,271 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01721,184,036 - 21,473,347 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41724,719,383 - 25,138,270 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1718,442,710 - 18,844,739 (+)NCBICelera
RGSC_v3.13103,267,365 - 103,268,238 (+)NCBI
Cytogenetic Map17p14NCBI
ATXN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38616,299,112 - 16,761,460 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl616,299,112 - 16,761,491 (-)Ensemblhg38GRCh38
GRCh37616,299,343 - 16,761,691 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36616,407,322 - 16,869,700 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34616,407,322 - 16,869,700NCBI
Celera617,537,162 - 17,999,561 (-)NCBICelera
Cytogenetic Map6p22.3NCBI
HuRef616,246,641 - 16,707,370 (-)NCBIHuRef
CHM1_1616,301,995 - 16,764,390 (-)NCBICHM1_1
T2T-CHM13v2.0616,171,667 - 16,634,155 (-)NCBIT2T-CHM13v2.0
Atxn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391345,703,231 - 46,118,467 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1345,703,231 - 46,118,484 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381345,549,755 - 45,964,991 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1345,549,755 - 45,965,008 (-)Ensemblmm10GRCm38
MGSCv371345,650,262 - 46,060,345 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361345,565,865 - 45,975,948 (-)NCBIMGSCv36mm8
Celera1346,630,758 - 47,041,580 (-)NCBICelera
Cytogenetic Map13A5NCBI
cM Map1321.98NCBI
Atxn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554839,536,261 - 9,552,321 (+)Ensembl
ChiLan1.0NW_0049554839,159,877 - 9,559,453 (+)NCBIChiLan1.0ChiLan1.0
ATXN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2530,966,019 - 30,995,125 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1626,957,458 - 26,980,693 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0616,155,049 - 16,952,827 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1616,519,331 - 16,978,090 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl616,526,563 - 16,548,566 (-)EnsemblpanPan2panpan1.1
ATXN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13515,458,498 - 15,863,829 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3515,452,135 - 15,649,747 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3515,407,327 - 15,813,549 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03515,554,267 - 15,960,589 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3515,547,891 - 15,745,477 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13515,378,364 - 15,779,653 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03515,430,962 - 15,836,082 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03516,757,017 - 17,163,739 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Atxn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049469,209,716 - 9,230,696 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365522,505,238 - 2,521,231 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365522,498,711 - 2,521,225 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATXN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl712,301,013 - 12,457,450 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1712,299,938 - 12,730,850 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2712,896,238 - 13,321,905 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103222118
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11755,810,621 - 55,832,565 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1755,810,279 - 55,832,472 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604416,382,231 - 16,840,941 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atxn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475610,011,250 - 10,160,469 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247569,770,261 - 10,167,560 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Atxn1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11464,541,414 - 64,828,057 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Atxn1
2983 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:199
Count of miRNA genes:135
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000023140
Prediction methods:Miranda, Pita, 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
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17926675540968173Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17436005727233623Rat
8552966Pigfal18Plasma insulin-like growth factor 1 level QTL 188.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)171286094257860942Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920650523859062Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)17622199858177198Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
9589151Insul30Insulin level QTL 308.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)171286094257860942Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131706603Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17473353449733534Rat
9589057Scfw6Subcutaneous fat weight QTL 68.620.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)171286094257860942Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920650523859062Rat
9590154Scort9Serum corticosterone level QTL 923.570.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)171286094257860942Rat
9590088Insglur7Insulin/glucose ratio QTL 720.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)171286094257860942Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)17122181410Rat
1331720Rf43Renal function QTL 432.881kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)171553702528637951Rat
2317053Aia25Adjuvant induced arthritis QTL 252.69joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)171060469455604694Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17136045694Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171553702560531414Rat
7411666Foco31Food consumption QTL 3111.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)171286094257860942Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17121499218Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17473353449733534Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17857434232199534Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138037084Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920650523859062Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17436005727233623Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17212084322087569Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122877318Rat

Markers in Region
D17Wox16  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81719,347,749 - 19,348,005 (+)Marker Load Pipeline
mRatBN7.21719,141,577 - 19,141,833 (+)MAPPERmRatBN7.2
Rnor_6.01719,533,032 - 19,533,287NCBIRnor6.0
Rnor_5.01721,558,489 - 21,558,744UniSTSRnor5.0
RGSC_v3.41725,137,488 - 25,137,743UniSTSRGSC3.4
Celera1718,843,957 - 18,844,212UniSTS
Cytogenetic Map17p13UniSTS
RH132155  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1718,466,824 - 18,467,021UniSTS
RH 3.4 Map17201.6UniSTS
Cytogenetic Map17p13UniSTS
RH133713  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21718,735,609 - 18,735,811 (-)MAPPERmRatBN7.2
Rnor_6.01716,749,555 - 16,749,756NCBIRnor6.0
Rnor_5.01718,801,090 - 18,801,291UniSTSRnor5.0
RGSC_v3.41724,717,130 - 24,717,331UniSTSRGSC3.4
Celera1718,440,788 - 18,440,989UniSTS
RH 3.4 Map17201.2UniSTS
Cytogenetic Map17p13UniSTS
BF386213  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81719,242,252 - 19,242,395 (+)Marker Load Pipeline
mRatBN7.21719,036,069 - 19,036,212 (+)MAPPERmRatBN7.2
Rnor_6.01719,450,734 - 19,450,876NCBIRnor6.0
Rnor_5.01721,475,126 - 21,475,268UniSTSRnor5.0
RGSC_v3.41725,026,336 - 25,026,478UniSTSRGSC3.4
Celera1718,738,615 - 18,738,757UniSTS
RH 3.4 Map17250.6UniSTS
Cytogenetic Map17p13UniSTS
BE106629  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21718,896,287 - 18,896,438 (+)MAPPERmRatBN7.2
Rnor_6.01719,311,586 - 19,311,736NCBIRnor6.0
Rnor_5.01721,336,084 - 21,336,234UniSTSRnor5.0
RGSC_v3.41724,885,277 - 24,885,427UniSTSRGSC3.4
Celera1718,598,660 - 18,598,810UniSTS
RH 3.4 Map17212.8UniSTS
Cytogenetic Map17p13UniSTS
RH138268  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21718,922,968 - 18,923,147 (+)MAPPERmRatBN7.2
Rnor_6.01719,338,262 - 19,338,440NCBIRnor6.0
Rnor_5.01721,363,014 - 21,363,192UniSTSRnor5.0
RGSC_v3.41724,910,919 - 24,911,097UniSTSRGSC3.4
Celera1718,625,945 - 18,626,123UniSTS
RH 3.4 Map17201.1UniSTS
Cytogenetic Map17p13UniSTS
AI502631  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21718,850,240 - 18,850,427 (+)MAPPERmRatBN7.2
Rnor_6.01719,250,051 - 19,250,237NCBIRnor6.0
Rnor_5.01721,272,917 - 21,273,103UniSTSRnor5.0
RGSC_v3.41724,819,776 - 24,819,962UniSTSRGSC3.4
Celera1718,554,213 - 18,554,399UniSTS
RH 3.4 Map17214.2UniSTS
Cytogenetic Map17p13UniSTS


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
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 355 192 11 143 80 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000023140   ⟹   ENSRNOP00000023140
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1719,208,200 - 19,349,584 (+)Ensembl
mRatBN7.2 Ensembl1718,737,533 - 19,142,360 (+)Ensembl
Rnor_6.0 Ensembl1719,249,952 - 19,533,814 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000160929   ⟹   ENSRNOP00000109752
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1719,208,200 - 19,356,790 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000170287   ⟹   ENSRNOP00000105765
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1719,208,200 - 19,356,322 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000172310   ⟹   ENSRNOP00000112684
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1719,208,200 - 19,355,089 (+)Ensembl
RefSeq Acc Id: NM_012726   ⟹   NP_036858
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,769 - 19,348,532 (+)NCBI
mRatBN7.21718,737,533 - 19,142,360 (+)NCBI
Rnor_6.01719,160,986 - 19,533,814 (+)NCBI
Rnor_5.01721,184,036 - 21,473,347 (+)NCBI
Rnor_5.01721,544,083 - 21,559,271 (+)NCBI
RGSC_v3.41724,719,383 - 25,138,270 (+)RGD
Celera1718,442,710 - 18,844,739 (+)RGD
Sequence:
RefSeq Acc Id: XM_039095351   ⟹   XP_038951279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,496 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095352   ⟹   XP_038951280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,494 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095353   ⟹   XP_038951281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,491 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095354   ⟹   XP_038951282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,492 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095356   ⟹   XP_038951284
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,945,110 - 19,354,751 (+)NCBI
mRatBN7.21718,738,884 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095357   ⟹   XP_038951285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,945,650 - 19,354,751 (+)NCBI
mRatBN7.21718,739,412 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095361   ⟹   XP_038951289
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,945,650 - 19,354,751 (+)NCBI
mRatBN7.21718,741,927 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095363   ⟹   XP_038951291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,492 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095364   ⟹   XP_038951292
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
mRatBN7.21718,737,491 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095365   ⟹   XP_038951293
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,952,851 - 19,354,751 (+)NCBI
mRatBN7.21718,746,619 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095366   ⟹   XP_038951294
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,952,851 - 19,354,751 (+)NCBI
mRatBN7.21718,746,619 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095367   ⟹   XP_038951295
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81719,056,138 - 19,354,751 (+)NCBI
mRatBN7.21718,849,931 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_039095368   ⟹   XP_038951296
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,996,908 - 19,354,751 (+)NCBI
mRatBN7.21718,797,679 - 19,141,676 (+)NCBI
RefSeq Acc Id: XM_063276064   ⟹   XP_063132134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,944,019 - 19,354,751 (+)NCBI
RefSeq Acc Id: XM_063276065   ⟹   XP_063132135
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,945,288 - 19,354,751 (+)NCBI
RefSeq Acc Id: XM_063276066   ⟹   XP_063132136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,944,020 - 19,354,751 (+)NCBI
RefSeq Acc Id: XM_063276067   ⟹   XP_063132137
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,943,397 - 19,354,751 (+)NCBI
RefSeq Acc Id: XM_063276068   ⟹   XP_063132138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81718,952,851 - 19,354,751 (+)NCBI
RefSeq Acc Id: NP_036858   ⟸   NM_012726
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000023140   ⟸   ENSRNOT00000023140
RefSeq Acc Id: XP_038951281   ⟸   XM_039095353
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951292   ⟸   XM_039095364
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951282   ⟸   XM_039095354
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951291   ⟸   XM_039095363
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951280   ⟸   XM_039095352
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951279   ⟸   XM_039095351
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951284   ⟸   XM_039095356
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951285   ⟸   XM_039095357
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951289   ⟸   XM_039095361
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951294   ⟸   XM_039095366
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951293   ⟸   XM_039095365
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951296   ⟸   XM_039095368
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951295   ⟸   XM_039095367
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063132137   ⟸   XM_063276067
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063132134   ⟸   XM_063276064
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063132136   ⟸   XM_063276066
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063132135   ⟸   XM_063276065
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063132138   ⟸   XM_063276068
- Peptide Label: isoform X1
- UniProtKB: Q63540 (UniProtKB/Swiss-Prot),   A6J718 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000112684   ⟸   ENSRNOT00000172310
Ensembl Acc Id: ENSRNOP00000105765   ⟸   ENSRNOT00000170287
Ensembl Acc Id: ENSRNOP00000109752   ⟸   ENSRNOT00000160929
Protein Domains
AXH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63540-F1-model_v2 AlphaFold Q63540 1-789 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:3624 AgrOrtholog
BioCyc Gene G2FUF-9874 BioCyc
Ensembl Genes ENSRNOG00000016998 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000023140 ENTREZGENE
  ENSRNOT00000023140.5 UniProtKB/Swiss-Prot
InterPro Ataxin-1_N UniProtKB/Swiss-Prot
  ATAXIN1-like UniProtKB/Swiss-Prot
  Ataxin_AXH_dom UniProtKB/Swiss-Prot
  Ataxin_AXH_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:25049 UniProtKB/Swiss-Prot
NCBI Gene 25049 ENTREZGENE
PANTHER PTHR13392 UniProtKB/Swiss-Prot
  PTHR13392:SF5 UniProtKB/Swiss-Prot
Pfam ATXN-1_C UniProtKB/Swiss-Prot
  AXH UniProtKB/Swiss-Prot
PhenoGen Atxn1 PhenoGen
PROSITE AXH UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000016998 RatGTEx
SMART AXH UniProtKB/Swiss-Prot
Superfamily-SCOP SSF102031 UniProtKB/Swiss-Prot
TIGR TC207283
UniProt A0ABK0LLC0_RAT UniProtKB/TrEMBL
  A0ABK0LNT4_RAT UniProtKB/TrEMBL
  A0ABK0M4G7_RAT UniProtKB/TrEMBL
  A6J718 ENTREZGENE, UniProtKB/TrEMBL
  ATX1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Atxn1  ataxin 1  Sca1  spinocerebellar ataxia 1 homolog (human)  Symbol and Name updated 1299863 APPROVED
2002-06-10 Sca1  Spinocerebellar ataxia type 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the pyramidal cell layer of the hippocampus and in cerebellar Purkinje cells 729738