Rai1 (retinoic acid induced 1) - Rat Genome Database

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Gene: Rai1 (retinoic acid induced 1) Mus musculus
Analyze
Symbol: Rai1
Name: retinoic acid induced 1
RGD ID: 1318305
MGI Page MGI
Description: Predicted to enable metal ion binding activity. Involved in circadian regulation of gene expression. Acts upstream of or within regulation of growth; regulation of transcription by RNA polymerase II; and skeletal system development. Located in nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; limb bud; and sensory organ. Used to study Smith-Magenis syndrome. Human ortholog(s) of this gene implicated in Smith-Magenis syndrome. Orthologous to human RAI1 (retinoic acid induced 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Gt1; retinoic acid-induced protein 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391159,995,743 - 60,090,023 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1159,995,839 - 60,090,023 (+)EnsemblGRCm39 Ensembl
GRCm381160,104,917 - 60,199,197 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,105,013 - 60,199,197 (+)EnsemblGRCm38mm10GRCm38
MGSCv371159,918,515 - 60,012,697 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361159,921,208 - 60,015,390 (+)NCBIMGSCv36mm8
Celera1166,676,319 - 66,703,527 (-)NCBICelera
Cytogenetic Map11B1.3- B2NCBI
cM Map1137.81NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,4-dinitrotoluene  (ISO)
2-butoxyethanol  (EXP)
2-methylcholine  (ISO)
2-palmitoylglycerol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
6-propyl-2-thiouracil  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (ISO)
amphetamine  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
buta-1,3-diene  (EXP)
butan-1-ol  (ISO)
butanal  (ISO)
caffeine  (ISO)
carbon nanotube  (EXP)
CGP 52608  (ISO)
chlorpyrifos  (EXP)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP)
formaldehyde  (ISO)
FR900359  (ISO)
genistein  (EXP)
gentamycin  (ISO)
indometacin  (ISO)
menadione  (ISO)
methimazole  (ISO)
methoxychlor  (ISO)
methyl methanesulfonate  (ISO)
paracetamol  (ISO)
PCB138  (EXP)
perfluorohexanesulfonic acid  (EXP)
phenytoin  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
sodium arsenate  (ISO)
sulfadimethoxine  (ISO)
sunitinib  (ISO)
tebuconazole  (ISO)
testosterone  (EXP)
titanium dioxide  (EXP)
trichostatin A  (ISO)
triptonide  (EXP)
tungsten  (EXP)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
nucleoplasm  (ISO)
nucleus  (IBA,IDA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal associative learning  (IAGP)
abnormal axial skeleton morphology  (IAGP)
abnormal brain wave pattern  (IAGP)
abnormal cervical vertebrae morphology  (IAGP)
abnormal circadian behavior  (IAGP)
abnormal contextual conditioning behavior  (IAGP)
abnormal cued conditioning behavior  (IAGP)
abnormal nasal bone morphology  (IAGP)
abnormal rib development  (IAGP)
abnormal snout morphology  (IAGP)
abnormal spatial working memory  (IAGP)
abnormal thoracic vertebrae morphology  (IAGP)
abnormal thyroid cartilage morphology  (IAGP)
abnormal vertebral arch development  (IAGP)
broad nasal bone  (IAGP)
broad snout  (IAGP)
decreased body size  (IAGP)
decreased body weight  (IAGP)
decreased locomotor activity  (IAGP)
decreased survivor rate  (IAGP)
embryonic lethality between implantation and somite formation, incomplete penetrance  (IAGP)
fusion of atlas and odontoid process  (IAGP)
hyperactivity  (IAGP)
impaired contextual conditioning behavior  (IAGP)
impaired coordination  (IAGP)
impaired cued conditioning behavior  (IAGP)
increased abdominal adipose tissue amount  (IAGP)
increased amylin secretion  (IAGP)
increased anxiety-related response  (IAGP)
increased body fat mass  (IAGP)
increased body weight  (IAGP)
increased cholesterol level  (IAGP)
increased circulating corticosterone level  (IAGP)
increased circulating HDL cholesterol level  (IAGP)
increased circulating LDL cholesterol level  (IAGP)
increased circulating leptin level  (IAGP)
increased circulating VLDL cholesterol level  (IAGP)
increased food intake  (IAGP)
increased lean body mass  (IAGP)
increased total fat pad weight  (IAGP)
increased triglyceride level  (IAGP)
increased vertical activity  (IAGP)
increased white adipose tissue amount  (IAGP)
kyphosis  (IAGP)
lethality throughout fetal growth and development, incomplete penetrance  (IAGP)
limb grasping  (IAGP)
malocclusion  (IAGP)
no abnormal phenotype detected  (IAGP)
obese  (IAGP)
polyphagia  (IAGP)
polyphalangy  (IAGP)
postnatal growth retardation  (IAGP)
postnatal lethality, incomplete penetrance  (IAGP)
premature death  (IAGP)
seizures  (IAGP)
short nasal bone  (IAGP)
short snout  (IAGP)
tonic-clonic seizures  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. MGD IEA MGD IEA
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. Mouse MP Annotation Import Pipeline RGD automated import pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Mutations in RAI1 associated with Smith-Magenis syndrome. Slager RE, etal., Nat Genet. 2003 Apr;33(4):466-8. Epub 2003 Mar 24.
Additional References at PubMed
PMID:7476016   PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11404004   PMID:12477932   PMID:12837267   PMID:12904583   PMID:14610273   PMID:14621295   PMID:15565467  
PMID:15746153   PMID:16141072   PMID:16141073   PMID:16501100   PMID:16602821   PMID:17024248   PMID:17273973   PMID:17517686   PMID:18285828   PMID:18287559   PMID:18799693   PMID:19116176  
PMID:19319603   PMID:20663924   PMID:21124890   PMID:21267068   PMID:21873635   PMID:22578325   PMID:22654670   PMID:23345394   PMID:23703963   PMID:24218365   PMID:24952961   PMID:25127133  
PMID:25752576   PMID:25921334   PMID:26764384   PMID:27693255   PMID:28548639   PMID:28671696   PMID:30275311   PMID:31777937   PMID:32027825   PMID:34463714   PMID:35074918   PMID:36256819  
PMID:36410433   PMID:37956053   PMID:38289192  


Genomics

Comparative Map Data
Rai1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391159,995,743 - 60,090,023 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1159,995,839 - 60,090,023 (+)EnsemblGRCm39 Ensembl
GRCm381160,104,917 - 60,199,197 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,105,013 - 60,199,197 (+)EnsemblGRCm38mm10GRCm38
MGSCv371159,918,515 - 60,012,697 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361159,921,208 - 60,015,390 (+)NCBIMGSCv36mm8
Celera1166,676,319 - 66,703,527 (-)NCBICelera
Cytogenetic Map11B1.3- B2NCBI
cM Map1137.81NCBI
RAI1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381717,681,458 - 17,811,453 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1717,681,458 - 17,811,453 (+)EnsemblGRCh38hg38GRCh38
GRCh371717,584,772 - 17,714,767 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361717,525,512 - 17,655,492 (+)NCBINCBI36Build 36hg18NCBI36
Build 341717,525,511 - 17,655,488NCBI
Celera1718,524,196 - 18,654,240 (+)NCBICelera
Cytogenetic Map17p11.2NCBI
HuRef1717,379,839 - 17,467,013 (+)NCBIHuRef
CHM1_11717,593,539 - 17,723,560 (+)NCBICHM1_1
T2T-CHM13v2.01717,628,072 - 17,758,044 (+)NCBIT2T-CHM13v2.0
Rai1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81045,412,748 - 45,507,747 (+)NCBIGRCr8
mRatBN7.21044,913,231 - 45,008,232 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1044,947,909 - 45,008,232 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1049,648,152 - 49,708,431 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01049,138,520 - 49,198,799 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01044,642,122 - 44,702,401 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01046,511,271 - 46,571,591 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1046,511,271 - 46,571,583 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01046,266,031 - 46,326,610 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,447,367 - 46,462,266 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11046,451,714 - 46,475,383 (+)NCBI
Celera1044,205,139 - 44,265,461 (+)NCBICelera
Cytogenetic Map10q22NCBI
Rai1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955577183,051 - 200,139 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955577185,404 - 296,613 (-)NCBIChiLan1.0ChiLan1.0
RAI1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21952,197,302 - 52,327,384 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11756,909,581 - 57,039,349 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01733,484,543 - 33,614,608 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11738,431,946 - 38,491,164 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1738,431,946 - 38,461,861 (-)Ensemblpanpan1.1panPan2
RAI1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1541,687,436 - 41,797,354 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl541,688,479 - 41,808,918 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha541,825,914 - 41,946,978 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0541,793,327 - 41,914,676 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl541,793,333 - 41,874,621 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1541,760,923 - 41,882,016 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0541,708,309 - 41,818,270 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0541,900,265 - 42,021,349 (-)NCBIUU_Cfam_GSD_1.0
Rai1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560261,459,132 - 61,534,903 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367411,332,339 - 1,406,628 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367411,332,353 - 1,408,116 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAI1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,755,521 - 60,766,058 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,751,159 - 60,854,710 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RAI1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11616,717,767 - 16,847,014 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1616,760,189 - 16,849,346 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660594,064,324 - 4,194,553 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rai1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248493,625,882 - 3,640,671 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248493,624,436 - 3,749,276 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rai1
3609 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2756
Count of miRNA genes:738
Interacting mature miRNAs:976
Transcripts:ENSMUST00000064190, ENSMUST00000090806, ENSMUST00000102688, ENSMUST00000132012, ENSMUST00000149770, ENSMUST00000156902, ENSMUST00000171108
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4142475Ity2a_mimmunity to S. typhimurium 2a (mouse)Not determined113776858060402716Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141084Spqq1_msperm quality QTL 1 (mouse)Not determined5406567063319522Mouse
1302186Blmpf2_mbleomycin-induced pulmonary fibrosis 2 (mouse)Not determined115406567067078411Mouse
4142148Ckdbp2_mchronic kidney disease blood pressure locus 2 (mouse)Not determined115408094165103841Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5528498572209927Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115849055574754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
11532697Sluc36_msusceptibility to lung cancer 36 (mouse)115925661769482699Mouse

Markers in Region
RH135991  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,160,352 - 60,160,546UniSTSGRCm38
MGSCv371159,973,854 - 59,974,048UniSTSGRCm37
Celera1166,714,734 - 66,714,928UniSTS
Cytogenetic Map11B2UniSTS
RH132247  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,199,212 - 60,199,409UniSTSGRCm38
MGSCv371160,012,714 - 60,012,911UniSTSGRCm37
Celera1166,676,105 - 66,676,302UniSTS
Cytogenetic Map11B2UniSTS
Rai1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,197,816 - 60,198,503UniSTSGRCm38
MGSCv371160,011,318 - 60,012,005UniSTSGRCm37
Celera1166,677,011 - 66,677,699UniSTS
Cytogenetic Map11B2UniSTS
cM Map11 UniSTS
Rai1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,190,962 - 60,191,471UniSTSGRCm38
MGSCv371160,004,464 - 60,004,973UniSTSGRCm37
Celera1166,684,042 - 66,684,551UniSTS
Cytogenetic Map11B2UniSTS
Rai1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381160,185,980 - 60,186,466UniSTSGRCm38
MGSCv371159,999,482 - 59,999,968UniSTSGRCm37
Celera1166,689,047 - 66,689,533UniSTS
Cytogenetic Map11B2UniSTS
cM Map11 UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001037764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_009021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036156456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003949361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004936881 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_879537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_879538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_879539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK013909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK129449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL645526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL669954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY548172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC049785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC145882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC145884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D29801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000064190   ⟹   ENSMUSP00000070896
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1159,995,839 - 60,090,021 (+)Ensembl
GRCm38.p6 Ensembl1160,105,013 - 60,199,195 (+)Ensembl
RefSeq Acc Id: ENSMUST00000090806   ⟹   ENSMUSP00000088315
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,030,910 - 60,082,851 (+)Ensembl
GRCm38.p6 Ensembl1160,140,084 - 60,192,025 (+)Ensembl
RefSeq Acc Id: ENSMUST00000102688   ⟹   ENSMUSP00000099749
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,066,705 - 60,090,023 (+)Ensembl
GRCm38.p6 Ensembl1160,175,879 - 60,199,197 (+)Ensembl
RefSeq Acc Id: ENSMUST00000132012   ⟹   ENSMUSP00000118543
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1159,996,003 - 60,076,257 (+)Ensembl
GRCm38.p6 Ensembl1160,105,177 - 60,185,431 (+)Ensembl
RefSeq Acc Id: ENSMUST00000149770
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1159,995,839 - 60,090,023 (+)Ensembl
GRCm38.p6 Ensembl1160,105,013 - 60,199,197 (+)Ensembl
RefSeq Acc Id: ENSMUST00000156902
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,031,085 - 60,032,073 (+)Ensembl
GRCm38.p6 Ensembl1160,140,259 - 60,141,247 (+)Ensembl
RefSeq Acc Id: ENSMUST00000171108   ⟹   ENSMUSP00000126183
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1160,030,908 - 60,090,021 (+)Ensembl
GRCm38.p6 Ensembl1160,140,082 - 60,199,195 (+)Ensembl
RefSeq Acc Id: NM_001037764   ⟹   NP_001032853
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,030,908 - 60,090,021 (+)NCBI
GRCm381160,140,082 - 60,199,195 (+)NCBI
MGSCv371159,918,515 - 60,012,697 (+)RGD
Celera1166,676,319 - 66,703,527 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_009021   ⟹   NP_033047
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,839 - 60,090,021 (+)NCBI
GRCm381160,105,013 - 60,199,195 (+)NCBI
MGSCv371159,918,515 - 60,012,697 (+)RGD
Celera1166,676,319 - 66,703,527 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036156456   ⟹   XP_036012349
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,041,796 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_003949361
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,035,195 - 60,090,023 (+)NCBI
GRCm381160,141,175 - 60,199,197 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936875
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,022,726 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936877
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,041,467 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936878
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,743 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936879
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,743 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936880
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,743 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004936881
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,743 - 60,090,023 (+)NCBI
Sequence:
RefSeq Acc Id: XR_879537
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,743 - 60,090,023 (+)NCBI
GRCm381160,104,917 - 60,199,197 (+)NCBI
Sequence:
RefSeq Acc Id: XR_879538
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391159,995,756 - 60,090,023 (+)NCBI
GRCm381160,104,930 - 60,199,197 (+)NCBI
Sequence:
RefSeq Acc Id: XR_879539
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391160,041,796 - 60,090,023 (+)NCBI
GRCm381160,175,199 - 60,199,197 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001032853   ⟸   NM_001037764
- UniProtKB: Q6ZPH7 (UniProtKB/Swiss-Prot),   B1AU87 (UniProtKB/Swiss-Prot),   Q8CEV1 (UniProtKB/Swiss-Prot),   Q61818 (UniProtKB/Swiss-Prot),   Q5QGZ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_033047   ⟸   NM_009021
- UniProtKB: Q6ZPH7 (UniProtKB/Swiss-Prot),   B1AU87 (UniProtKB/Swiss-Prot),   Q8CEV1 (UniProtKB/Swiss-Prot),   Q61818 (UniProtKB/Swiss-Prot),   Q5QGZ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000088315   ⟸   ENSMUST00000090806
RefSeq Acc Id: ENSMUSP00000118543   ⟸   ENSMUST00000132012
RefSeq Acc Id: ENSMUSP00000126183   ⟸   ENSMUST00000171108
RefSeq Acc Id: ENSMUSP00000070896   ⟸   ENSMUST00000064190
RefSeq Acc Id: ENSMUSP00000099749   ⟸   ENSMUST00000102688
RefSeq Acc Id: XP_036012349   ⟸   XM_036156456
- Peptide Label: isoform X1
- UniProtKB: Q6ZPH7 (UniProtKB/Swiss-Prot),   Q61818 (UniProtKB/Swiss-Prot),   B1AU87 (UniProtKB/Swiss-Prot),   Q8CEV1 (UniProtKB/Swiss-Prot),   Q5QGZ6 (UniProtKB/TrEMBL)
Protein Domains
PHD-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q61818-F1-model_v2 AlphaFold Q61818 1-1889 view protein structure

Promoters
RGD ID:6821698
Promoter ID:MM_KWN:7684
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour,   Brain,   Lung
Transcripts:NM_009021,   OTTMUST00000012878,   OTTMUST00000012879
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361159,918,331 - 59,918,831 (+)MPROMDB
RGD ID:6821699
Promoter ID:MM_KWN:7686
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Liver
Transcripts:NM_001037764,   OTTMUST00000012880,   UC007JFL.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361159,952,611 - 59,953,111 (+)MPROMDB
RGD ID:6821697
Promoter ID:MM_KWN:7687
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell,   Kidney,   Lung,   Spleen
Transcripts:ENSMUST00000102688
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361159,989,081 - 59,989,862 (+)MPROMDB
RGD ID:6848595
Promoter ID:MM_TRO:1536
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell,   Kidney,   Lung,   Spleen
Transcripts:MTR026619.11.1127.2,   MTR026619.11.1127.3,   MTR026619.11.1127.4
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361159,999,361 - 60,004,012 (+)MPROMDB
RGD ID:6846894
Promoter ID:MM_ACW:7604
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day2,   3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Liver,   Lung,   MEF_B6
Transcripts:RAI1.ESEP07,   RAI1.FSEP07-UNSPLICED,   RAI1.JSEP07
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361160,011,281 - 60,012,182 (+)MPROMDB
RGD ID:8674862
Promoter ID:EPDNEW_M15462
Type:initiation region
Name:Rai1_1
Description:Mus musculus retinoic acid induced 1 , transcript variant 2,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15463  EPDNEW_M15464  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381160,105,060 - 60,105,120EPDNEW
RGD ID:8674864
Promoter ID:EPDNEW_M15463
Type:initiation region
Name:Rai1_2
Description:Mus musculus retinoic acid induced 1 , transcript variant 2,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15462  EPDNEW_M15464  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381160,139,996 - 60,140,056EPDNEW
RGD ID:8674866
Promoter ID:EPDNEW_M15464
Type:single initiation site
Name:Rai1_3
Description:Mus musculus retinoic acid induced 1 , transcript variant 2,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15462  EPDNEW_M15463  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381160,141,330 - 60,141,390EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:103291 AgrOrtholog
Ensembl Genes ENSMUSG00000062115 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000064190 ENTREZGENE
  ENSMUST00000064190.13 UniProtKB/Swiss-Prot
  ENSMUST00000090806.5 UniProtKB/Swiss-Prot
  ENSMUST00000102688 ENTREZGENE
  ENSMUST00000102688.2 UniProtKB/Swiss-Prot
  ENSMUST00000132012.2 UniProtKB/TrEMBL
  ENSMUST00000171108 ENTREZGENE
  ENSMUST00000171108.8 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EPHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:19377 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:103291 ENTREZGENE
NCBI Gene 19377 ENTREZGENE
PANTHER RETINOIC ACID INDUCED 1/TRANSCRIPTION FACTOR 20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RETINOIC ACID-INDUCED PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam zf-HC5HC2H UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rai1 PhenoGen
PROSITE EPHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6H6H9_MOUSE UniProtKB/TrEMBL
  B1AU85_MOUSE UniProtKB/TrEMBL
  B1AU87 ENTREZGENE
  Q5QGZ6 ENTREZGENE, UniProtKB/TrEMBL
  Q61818 ENTREZGENE
  Q6ZPH7 ENTREZGENE
  Q810L5_MOUSE UniProtKB/TrEMBL
  Q8CEV1 ENTREZGENE
  RAI1_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary B1AU87 UniProtKB/Swiss-Prot
  Q6ZPH7 UniProtKB/Swiss-Prot
  Q8CEV1 UniProtKB/Swiss-Prot