Tap1 (transporter 1, ATP binding cassette subfamily B member) - Rat Genome Database

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Gene: Tap1 (transporter 1, ATP binding cassette subfamily B member) Rattus norvegicus
Analyze
Symbol: Tap1
Name: transporter 1, ATP binding cassette subfamily B member
RGD ID: 3817
Description: Enables several functions, including ATP hydrolysis activity; TAP binding activity; and adenyl ribonucleotide binding activity. Contributes to peptide antigen binding activity. Involved in peptide transport and protection from natural killer cell mediated cytotoxicity. Located in intracellular membrane-bounded organelle. Part of TAP complex. Human ortholog(s) of this gene implicated in several diseases, including MHC class I deficiency; autoimmune disease (multiple); bronchial disease (multiple); diffuse scleroderma; and lung disease (multiple). Orthologous to human TAP1 (transporter 1, ATP binding cassette subfamily B member); PARTICIPATES IN antigen processing and presentation pathway; phagocytosis pathway; primary immunodeficiency pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Abcb2; antigen peptide transporter 1; APT1; ATP-binding cassette sub-family B member 2; Cim; MGC124549; peptide transporter TAP1; Tap2; Transporter 1 ABC (ATP binding cassette); transporter 1 ATP-binding cassette sub-family B; Transporter 1, ABC (ATP binding cassette); transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)
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
mRatBN7.2204,656,262 - 4,666,634 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl204,656,263 - 4,666,901 (-)Ensembl
Rnor_6.0203,979,302 - 3,989,669 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,979,035 - 3,989,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,058,850 - 6,069,217 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,790,363 - 4,800,730 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1204,791,029 - 4,800,898 (-)NCBI
Celera206,257,317 - 6,267,656 (-)NCBICelera
RH 3.4 Map2060.6RGD
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,6-dinitrotoluene  (EXP)
2-[cyclohexyl(oxo)methyl]-3,6,7,11b-tetrahydro-1H-pyrazino[2,1-a]isoquinolin-4-one  (EXP)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-methylcholanthrene  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroperoxycyclophosphamide  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrolein  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP,ISO)
Aflatoxin G1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP)
cadmium dichloride  (EXP)
camptothecin  (ISO)
carbon nanotube  (ISO)
chloroform  (EXP)
chloroprene  (EXP)
chromium(6+)  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
Cuprizon  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
daunorubicin  (ISO)
deoxynivalenol  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dichlorvos  (EXP)
dieldrin  (ISO)
dimethylarsinous acid  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (EXP)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
formaldehyde  (ISO)
gentamycin  (EXP)
glycidol  (EXP)
haloperidol  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hydroxyurea  (ISO)
ivermectin  (ISO)
mercury atom  (EXP)
mercury(0)  (EXP)
methapyrilene  (EXP)
methyl methanesulfonate  (ISO)
mitoxantrone  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (EXP,ISO)
nickel sulfate  (EXP,ISO)
nimustine  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
succimer  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (EXP)
Triptolide  (EXP)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Antoniou AN, etal., Immunology. 2002 Jun;106(2):182-9.
2. Aquino-Galvez A, etal., Exp Mol Pathol. 2008 Apr;84(2):173-7. Epub 2008 Feb 14.
3. Barron KS, etal., Arthritis Rheum. 1995 May;38(5):684-9.
4. Becker KG, etal., Nat Genet. 2004 May;36(5):431-2.
5. Bouabe H and Knittler MR, Eur J Biochem 2003 Nov;270(22):4531-46.
6. Caillat-Zucman S, etal., C R Acad Sci III. 1992;315(13):535-9.
7. Deshpande A, etal., J Infect Dis. 2008 Feb 1;197(3):371-81.
8. Deverson EV, etal., Nature 1990 Dec 20-27;348(6303):738-41.
9. Dogru D, etal., Pediatr Pulmonol. 2007 Mar;42(3):237-41.
10. Ehses S, etal., J Immunol. 2005 Jan 1;174(1):328-39.
11. Fellerhoff B and Wank R, Med Hypotheses. 2009 May;72(5):535-8. Epub 2009 Feb 12.
12. Feng M, etal., Hum Immunol. 2009 Apr;70(4):257-61. Epub 2009 Feb 4.
13. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
14. GOA data from the GO Consortium
15. Gostout BS, etal., Gynecol Oncol. 2003 Mar;88(3):326-32.
16. Hang LW, etal., J Clin Lab Anal. 2003;17(2):57-60.
17. Izakovicova Holla L, etal., Clin Exp Allergy. 2001 Sep;31(9):1418-23.
18. Keusekotten K, etal., J Biol Chem. 2006 Jun 30;281(26):17545-51. Epub 2006 Apr 19.
19. Kim KR, etal., J Korean Med Sci. 2007 Oct;22(5):825-31.
20. Knittler MR, etal., Curr Biol. 1999 Sep 23;9(18):999-1008.
21. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
22. Lin HJ, etal., Mol Diagn. 2004;8(4):245-52.
23. Liu Q, etal., Scand J Gastroenterol. 2009;44(8):960-9.
24. Ma L, etal., Hum Immunol. 1997 Apr 1;53(2):159-66.
25. MGD data from the GO Consortium
26. NCBI rat LocusLink and RefSeq merged data July 26, 2002
27. OMIM Disease Annotation Pipeline
28. Pipeline to import KEGG annotations from KEGG into RGD
29. Procko E, etal., Mol Cell. 2006 Oct 6;24(1):51-62.
30. RGD automated data pipeline
31. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. RGD automated import pipeline for gene-chemical interactions
33. Rufer E, etal., J Immunol. 2007 Nov 1;179(9):5717-27.
34. Salcedo M, etal., J Immunol. 1994 Feb 15;152(4):1702-8.
35. Song YW, etal., Hum Immunol. 2005 Jul;66(7):810-7.
36. Sunder SR, etal., Hum Immunol. 2011 Oct;72(10):908-11. Epub 2011 Jul 31.
37. Takeuchi F, etal., Ann Rheum Dis. 1996 Dec;55(12):924-6.
38. Takeuchi K, etal., Ann Otol Rhinol Laryngol. 2002 May;111(5 Pt 1):460-3.
39. Vambutas A, etal., Clin Diagn Lab Immunol. 2000 Jan;7(1):79-85.
40. Vambutas A, etal., J Infect Dis. 2004 Mar 1;189(5):871-9. Epub 2004 Feb 16.
41. Van Kaer L, etal., Cell. 1992 Dec 24;71(7):1205-14.
42. Vasku V, etal., Arch Dermatol Res. 2000 Nov;292(11):531-4.
43. Velarde G, etal., J Biol Chem. 2001 Dec 7;276(49):46054-63. Epub 2001 Oct 10.
44. Verweij MC, etal., J Immunol. 2008 Oct 1;181(7):4894-907.
45. Yan G, etal., J Immunol. 1997 Sep 15;159(6):3068-80.
46. Yan G, etal., Tissue Antigens. 1997 Dec;50(6):576-85.
Additional References at PubMed
PMID:1300480   PMID:1538751   PMID:7538543   PMID:7673167   PMID:8342042   PMID:8955196   PMID:10605026   PMID:11133832   PMID:11532014   PMID:11532960   PMID:12470953   PMID:12477932  
PMID:12645939   PMID:14735325   PMID:15518576   PMID:15577206   PMID:15793001   PMID:17418234   PMID:18614015   PMID:19946888   PMID:24586191   PMID:28542489  


Genomics

Candidate Gene Status
Tap1 is a candidate Gene for QTL Edcs3
Comparative Map Data
Tap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,656,262 - 4,666,634 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl204,656,263 - 4,666,901 (-)Ensembl
Rnor_6.0203,979,302 - 3,989,669 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,979,035 - 3,989,669 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,058,850 - 6,069,217 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,790,363 - 4,800,730 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1204,791,029 - 4,800,898 (-)NCBI
Celera206,257,317 - 6,267,656 (-)NCBICelera
RH 3.4 Map2060.6RGD
Cytogenetic Map20p12NCBI
TAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38632,845,209 - 32,853,704 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl632,845,209 - 32,853,816 (-)EnsemblGRCh38hg38GRCh38
GRCh37632,812,986 - 32,821,481 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36632,920,964 - 32,929,726 (-)NCBINCBI36hg18NCBI36
Build 34632,920,964 - 32,929,726NCBI
Celera634,361,879 - 34,370,641 (-)NCBI
Cytogenetic Map6p21.32NCBI
HuRef632,555,192 - 32,563,954 (-)NCBIHuRef
CHM1_1632,813,813 - 32,822,573 (-)NCBICHM1_1
T2T-CHM13v2.0632,666,584 - 32,675,079 (-)NCBI
Tap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,406,530 - 34,416,199 (+)NCBIGRCm39mm39
GRCm39 Ensembl1734,406,527 - 34,416,199 (+)Ensembl
GRCm381734,187,556 - 34,197,225 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,187,553 - 34,197,225 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,324,501 - 34,334,170 (+)NCBIGRCm37mm9NCBIm37
MGSCv361733,798,168 - 33,807,011 (+)NCBImm8
Celera1736,941,149 - 36,950,813 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.98NCBI
Tap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,504,947 - 1,511,097 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,504,549 - 1,511,110 (-)NCBIChiLan1.0ChiLan1.0
TAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1633,530,170 - 33,538,978 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl633,530,171 - 33,538,978 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0632,414,665 - 32,423,488 (-)NCBIMhudiblu_PPA_v0panPan3
TAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1122,424,049 - 2,432,165 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl122,378,126 - 2,432,303 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha122,505,714 - 2,513,929 (-)NCBI
ROS_Cfam_1.0122,705,692 - 2,714,297 (-)NCBI
ROS_Cfam_1.0 Ensembl122,701,094 - 2,714,024 (-)Ensembl
UMICH_Zoey_3.1122,423,131 - 2,431,320 (-)NCBI
UNSW_CanFamBas_1.0122,504,597 - 2,512,789 (-)NCBI
UU_Cfam_GSD_1.0122,578,932 - 2,587,126 (-)NCBI
Tap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494638,052,572 - 38,060,923 (-)NCBI
SpeTri2.0NW_00493647625,899,514 - 25,907,690 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl725,062,773 - 25,071,862 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1725,062,772 - 25,071,989 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2729,274,670 - 29,283,290 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11739,252,000 - 39,260,195 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604432,632,142 - 32,640,337 (-)NCBIVero_WHO_p1.0
Tap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475423,815,915 - 23,822,827 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462475423,815,464 - 23,822,480 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH142199  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,666,717 - 4,666,900 (-)MAPPERmRatBN7.2
Rnor_6.0203,979,036 - 3,979,218NCBIRnor6.0
Rnor_5.0206,058,584 - 6,058,766UniSTSRnor5.0
RGSC_v3.4204,800,814 - 4,800,996UniSTSRGSC3.4
Celera206,267,740 - 6,267,922UniSTS
RH 3.4 Map2060.6UniSTS
Cytogenetic Map20p12UniSTS
RH139398  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,656,317 - 4,656,544 (-)MAPPERmRatBN7.2
Rnor_6.0203,989,387 - 3,989,613NCBIRnor6.0
Rnor_5.0206,068,935 - 6,069,161UniSTSRnor5.0
RGSC_v3.4204,790,419 - 4,790,645UniSTSRGSC3.4
Celera206,257,373 - 6,257,599UniSTS
RH 3.4 Map2064.6UniSTS
Cytogenetic Map20p12UniSTS
RH139868  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,656,365 - 4,656,556 (-)MAPPERmRatBN7.2
Rnor_6.0203,989,375 - 3,989,565NCBIRnor6.0
Rnor_5.0206,068,923 - 6,069,113UniSTSRnor5.0
RGSC_v3.4204,790,467 - 4,790,657UniSTSRGSC3.4
Celera206,257,421 - 6,257,611UniSTS
RH 3.4 Map2060.7UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
7175099Tcs2T cell selection QTL 2T cell selectionexpression2045025574693102Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:39
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000000529
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.


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 integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 1 30 14 19 14 2 7 11
Low 1 42 27 27 27 8 11 62 33 32 8
Below cutoff 12 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_032055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC098547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC101854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222902 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222903 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222905 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X57523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X97611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y10235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000000529   ⟹   ENSRNOP00000000529
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,656,263 - 4,666,901 (-)Ensembl
Rnor_6.0 Ensembl203,979,035 - 3,989,669 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085225
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,985,399 - 3,985,986 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088615   ⟹   ENSRNOP00000070542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,987,230 - 3,987,860 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091362
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,979,282 - 3,980,422 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102515   ⟹   ENSRNOP00000088306
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,656,263 - 4,666,901 (-)Ensembl
RefSeq Acc Id: NM_032055   ⟹   NP_114444
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,656,262 - 4,666,634 (-)NCBI
Rnor_6.0203,979,302 - 3,989,669 (+)NCBI
Rnor_5.0206,058,850 - 6,069,217 (+)NCBI
RGSC_v3.4204,790,363 - 4,800,730 (-)RGD
Celera206,257,317 - 6,267,656 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_114444   ⟸   NM_032055
- Peptide Label: precursor
- UniProtKB: P97561 (UniProtKB/TrEMBL),   P97949 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000529   ⟸   ENSRNOT00000000529
RefSeq Acc Id: ENSRNOP00000070542   ⟸   ENSRNOT00000088615
RefSeq Acc Id: ENSRNOP00000088306   ⟸   ENSRNOT00000102515
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P36370-F1-model_v2 AlphaFold P36370 1-725 view protein structure

Transcriptome

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

Promoters
RGD ID:13701331
Promoter ID:EPDNEW_R11847
Type:initiation region
Name:Tap1_1
Description:transporter 1, ATP binding cassette subfamily B member
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_6.0203,979,278 - 3,979,338EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3979469 3979470 C T snv ACI/N (MCW), F344/NRrrc (MCW), WN/N (MCW)
20 3979638 3979639 A C snv MR/N (MCW)
20 3979764 3979765 C T snv WN/N (MCW), F344/NRrrc (MCW)
20 3980634 3980635 C T snv Buf/N (MCW), F344/NRrrc (MCW), ACI/N (MCW), MR/N (MCW), WKY/N (MCW), WN/N (MCW), M520/N (MCW)
20 3982965 3982966 G A snv Buf/N (MCW), F344/NRrrc (MCW), WN/N (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), ACI/N (MCW)
20 3982971 3982972 C T snv M520/N (2020), M520/NRrrcMcwi (2019), LEXF10A/StmMcwi (2020), LN/MavRrrcAek (2020), LH/MavRrrcAek (2020), LE/Stm (2019), LEXF4/Stm (2020), FXLE16/Stm (2020), BUF/N (2020), SBH/Ygl (RGD), LN/MavRrrc (RGD), SBH/Ygl (MCW), LE/Stm (RGD)
20 3985547 3985548 C A snv MR/N (MCW)
20 3985549 3985550 G T snv MWF/Hsd (2019), WAG/RijCrl (2020)
20 3985582 3985583 G C snv WN/N (MCW)
20 3986053 3986054 G A snv MR/N (MCW)
20 3989216 3989217 C T snv HXB2/IpcvMcwi (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), GK/FarMcwi (2019), BXH2/CubMcwi (2020), SHRSP/Gcrc (RGD), SHR/NHsd (RGD), GK/Ox (RGD), HXB31/IpcvMcwi (2019)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 6062519 6062520 C T snv SBH/Ygl (KNAW), M520/N (KNAW), LE/Stm (SOLiD) (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (KyushuU), LN/MavRrrc (KNAW), LH/MavRrrc (KNAW), SBH/Ygl (MCW), BUF/N (KNAW)
20 6065097 6065098 G T snv HTX/Kyo (KyushuU), RCS/Kyo (KyushuU), LEC/Tj (KyushuU), DOB/Oda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), BUF/MNa (KyushuU), Crl:SD (UDEL), SDLEF7/Barth (UDEL), SBN/Ygl (KNAW), MNS/Gib (KNAW), FHL/EurMcwi (KNAW), BBDP/WorN (KNAW), WAG/Rij (KNAW), MHS/Gib (KNAW), MR/N (KNAW)
20 6068764 6068765 C T snv GK/Ox (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 4790816 4790817 G A snv SHRSP/Gcrc (ICL), SHR/NHsd (ICL), SHR/OlaIpcv (ICL), GK/Ox (ICL), SHR/OlaIpcv (KNAW), SHR/OlaIpcv (ICL)
20 4794483 4794484 C A snv SBN/Ygl (ICL), WAG/Rij (ICL), MNS/Gib (ICL), MHS/Gib (ICL), FHL/EurMcwi (ICL), BBDP/WorN (ICL), MR/N (KNAW)
20 4797061 4797062 G A snv LE/Stm (KNAW), M520/N (KNAW), LE/Stm (ICL), LH/MavRrrc (ICL), LN/MavRrrc (ICL), SBH/Ygl (ICL), LCR/2Mco (UMich), HCR/2Mco (UMich)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 4656715 4656716 G A snv BXH2/CubMcwi (2020), GK/FarMcwi (2019), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019)
20 4660386 4660387 C A snv MWF/Hsd (2019), WAG/RijCrl (2020)
20 4662964 4662965 G A snv LEXF4/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LN/MavRrrcAek (2020), BUF/N (2020), M520/NRrrcMcwi (2019), M520/N (2020), FXLE16/Stm (2020), LEXF10A/StmMcwi (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3817 AgrOrtholog
BioCyc Gene G2FUF-4553 BioCyc
Ensembl Genes ENSRNOG00000000457 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000529 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070542 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000529 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088615 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1560.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7933924 IMAGE-MGC_LOAD
InterPro AAA+_ATPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC1_TM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC1_TM_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_Tap-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tap1/ABCB2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Type_I_exporter UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24811 UniProtKB/TrEMBL
MGC_CLONE MGC:124549 IMAGE-MGC_LOAD
NCBI Gene 24811 ENTREZGENE
PANTHER PTHR24221 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR24221:SF249 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ABC_membrane UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_tran UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB TAP1 RGD
PhenoGen Tap1 PhenoGen
PROSITE ABC_TM1F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF90123 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs 3a01208 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JY71_RAT UniProtKB/TrEMBL
  P36370 ENTREZGENE
  P97559_RAT UniProtKB/TrEMBL
  P97560_RAT UniProtKB/TrEMBL
  P97561 ENTREZGENE, UniProtKB/TrEMBL
  P97949 ENTREZGENE, UniProtKB/TrEMBL
  TAP1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-29 Tap1  transporter 1, ATP binding cassette subfamily B member  Tap1  transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Tap1  transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)     Transporter 1, ABC (ATP binding cassette)  Name updated 629478 APPROVED
2002-06-10 Tap1  Transporter 1, ABC (ATP binding cassette)      Symbol and Name status set to approved 70586 APPROVED