Meis2 (Meis homeobox 2) - Rat Genome Database

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Gene: Meis2 (Meis homeobox 2) Rattus norvegicus
Analyze
Symbol: Meis2
Name: Meis homeobox 2
RGD ID: 1305198
Description: Predicted to have DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and transcription factor binding activity. Involved in pancreas development; response to growth factor; and response to mechanical stimulus. Predicted to localize to nucleus. Human ortholog(s) of this gene implicated in cleft palate, cardiac defects, and intellectual disabillity. Orthologous to human MEIS2 (Meis homeobox 2); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; all-trans-retinoic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: homeobox protein Meis2; LOC311311; Meis1, myeloid ecotropic viral integration site 1 homolog 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
Rnor_6.0 Ensembl3107,559,997 - 107,760,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03107,560,172 - 107,762,732 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03114,124,722 - 114,327,367 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43101,915,966 - 102,117,215 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13101,812,373 - 102,015,498 (-)NCBI
Celera3101,688,008 - 101,887,707 (-)NCBICelera
Cytogenetic Map3q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
9-cis-retinoic acid  (ISO)
aldrin  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-4-oxoretinol  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-carotene  (ISO)
bisphenol A  (EXP,ISO)
captan  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
folpet  (ISO)
leflunomide  (ISO)
lenalidomide  (ISO)
methylmercury chloride  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitrogen dioxide  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
pomalidomide  (ISO)
potassium chromate  (ISO)
Ptaquiloside  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
thalidomide  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)

References

Additional References at PubMed
PMID:10764806   PMID:10842069   PMID:11279116   PMID:11358480   PMID:11438208   PMID:12183364   PMID:15465489   PMID:15617687   PMID:17049510   PMID:17178831   PMID:18787068   PMID:25834037  
PMID:26512644   PMID:26550823  


Genomics

Comparative Map Data
Meis2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
Rnor_6.0 Ensembl3107,559,997 - 107,760,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03107,560,172 - 107,762,732 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03114,124,722 - 114,327,367 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43101,915,966 - 102,117,215 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13101,812,373 - 102,015,498 (-)NCBI
Celera3101,688,008 - 101,887,707 (-)NCBICelera
Cytogenetic Map3q35NCBI
MEIS2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1536,889,204 - 37,101,299 (-)EnsemblGRCh38hg38GRCh38
GRCh381536,889,204 - 37,101,311 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371537,181,405 - 37,393,512 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361534,970,524 - 35,180,792 (-)NCBINCBI36hg18NCBI36
Celera1513,943,263 - 14,153,527 (-)NCBI
Cytogenetic Map15q14NCBI
HuRef1514,029,111 - 14,239,280 (-)NCBIHuRef
CHM1_11537,301,775 - 37,511,985 (-)NCBICHM1_1
Meis2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392115,691,745 - 115,897,925 (-)NCBIGRCm39mm39
GRCm39 Ensembl2115,693,545 - 115,896,320 (-)Ensembl
GRCm382115,861,264 - 116,067,537 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2115,863,064 - 116,065,839 (-)EnsemblGRCm38mm10GRCm38
MGSCv372115,687,000 - 115,890,794 (-)NCBIGRCm37mm9NCBIm37
MGSCv362115,554,510 - 115,756,553 (-)NCBImm8
Celera2117,003,666 - 117,210,747 (-)NCBICelera
Cytogenetic Map2E4- E5NCBI
cM Map258.28NCBI
Meis2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554164,104,114 - 4,311,791 (-)NCBIChiLan1.0ChiLan1.0
MEIS2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11534,072,665 - 34,283,411 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1534,072,665 - 34,282,477 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01515,814,739 - 16,025,512 (-)NCBIMhudiblu_PPA_v0panPan3
MEIS2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1304,422,451 - 4,627,277 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl304,422,440 - 4,741,335 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha304,476,676 - 4,681,235 (-)NCBI
ROS_Cfam_1.0304,544,212 - 4,749,027 (-)NCBI
UMICH_Zoey_3.1304,471,642 - 4,676,294 (-)NCBI
UNSW_CanFamBas_1.0304,569,335 - 4,774,290 (-)NCBI
UU_Cfam_GSD_1.0304,703,783 - 4,908,705 (-)NCBI
Meis2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864082,952,452 - 83,157,991 (-)NCBI
SpeTri2.0NW_004936471800,510 - 1,006,054 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MEIS2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1134,013,820 - 134,223,012 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11134,013,642 - 134,223,013 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21149,911,450 - 149,974,264 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MEIS2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12645,844,214 - 46,054,325 (+)NCBI
Meis2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248044,210,765 - 4,413,284 (-)NCBI

Position Markers
D3Rat204  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,578,444 - 107,578,706NCBIRnor6.0
Rnor_5.03114,142,994 - 114,143,256UniSTSRnor5.0
RGSC_v3.43101,934,370 - 101,934,633RGDRGSC3.4
RGSC_v3.43101,934,371 - 101,934,633UniSTSRGSC3.4
RGSC_v3.13101,830,703 - 101,831,085RGD
Celera3101,706,233 - 101,706,473UniSTS
FHH x ACI Map358.3499UniSTS
FHH x ACI Map358.3499RGD
Cytogenetic Map3q35UniSTS
D3Got228  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,633,685 - 107,633,904NCBIRnor6.0
Rnor_5.03114,198,235 - 114,198,454UniSTSRnor5.0
RGSC_v3.43101,989,612 - 101,989,831UniSTSRGSC3.4
Celera3101,761,392 - 101,761,599UniSTS
Cytogenetic Map3q35UniSTS
WI-18493  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,563,568 - 107,563,694NCBIRnor6.0
Rnor_5.03114,128,118 - 114,128,244UniSTSRnor5.0
RGSC_v3.43101,919,337 - 101,919,463UniSTSRGSC3.4
Celera3101,691,381 - 101,691,507UniSTS
Cytogenetic Map3q35UniSTS
BF419355  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,697,493 - 107,697,707NCBIRnor6.0
Rnor_5.03114,262,043 - 114,262,257UniSTSRnor5.0
RGSC_v3.43102,054,275 - 102,054,489UniSTSRGSC3.4
Celera3101,824,595 - 101,824,809UniSTS
RH 3.4 Map3787.9UniSTS
Cytogenetic Map3q35UniSTS
BF396365  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,382,487 - 107,382,626NCBIRnor6.0
Rnor_6.03107,749,428 - 107,749,567NCBIRnor6.0
Rnor_5.03114,313,763 - 114,313,902UniSTSRnor5.0
Rnor_5.03113,948,629 - 113,948,768UniSTSRnor5.0
RGSC_v3.43102,106,052 - 102,106,191UniSTSRGSC3.4
Celera3101,876,568 - 101,876,707UniSTS
RH 3.4 Map3790.6UniSTS
Cytogenetic Map3q35UniSTS
RH132496  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,761,886 - 107,762,089NCBIRnor6.0
Rnor_5.03114,326,201 - 114,326,404UniSTSRnor5.0
RGSC_v3.43102,118,851 - 102,119,054UniSTSRGSC3.4
Celera3101,889,063 - 101,889,266UniSTS
RH 3.4 Map3791.1UniSTS
Cytogenetic Map3q35UniSTS
BE097664  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,572,861 - 107,573,012NCBIRnor6.0
Rnor_5.03114,137,411 - 114,137,562UniSTSRnor5.0
RGSC_v3.43101,928,630 - 101,928,781UniSTSRGSC3.4
Celera3101,700,650 - 101,700,801UniSTS
RH 3.4 Map3796.7UniSTS
Cytogenetic Map3q35UniSTS
BF395876  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,572,045 - 107,572,268NCBIRnor6.0
Rnor_5.03114,136,595 - 114,136,818UniSTSRnor5.0
RGSC_v3.43101,927,814 - 101,928,037UniSTSRGSC3.4
Celera3101,699,834 - 101,700,057UniSTS
RH 3.4 Map3796.0UniSTS
Cytogenetic Map3q35UniSTS
RH138147  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,718,033 - 107,718,220NCBIRnor6.0
Rnor_5.03114,282,368 - 114,282,555UniSTSRnor5.0
RGSC_v3.43102,074,336 - 102,074,523UniSTSRGSC3.4
Celera3101,844,868 - 101,845,055UniSTS
RH 3.4 Map3788.3UniSTS
Cytogenetic Map3q35UniSTS
AU048515  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,755,041 - 107,755,203NCBIRnor6.0
Rnor_5.03114,319,376 - 114,319,538UniSTSRnor5.0
RGSC_v3.43102,111,665 - 102,111,827UniSTSRGSC3.4
Cytogenetic Map3q35UniSTS
UniSTS:234491  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03107,560,839 - 107,560,991NCBIRnor6.0
Rnor_5.03114,125,389 - 114,125,541UniSTSRnor5.0
RGSC_v3.43101,916,608 - 101,916,760UniSTSRGSC3.4
Celera3101,688,652 - 101,688,804UniSTS
Cytogenetic Map3q35UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)330114912123700444Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333477354108914061Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)339248391140271184Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)343295930108914061Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)343295930163640485Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)343295930163640485Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)345406058127023997Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)348561928155263151Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)351821836124513579Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)351822008120917851Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)354630948119830094Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)354630948119830094Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)354630948119830094Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)358204463170534769Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)361241033165369047Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)362922868127023997Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)366711607119830094Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)366711607119830094Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)372672290127023997Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)372973445127023997Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)378700444123700444Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)381136227154416635Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)383817637119509260Rat
7387306Bw124Body weight QTL 1243.20.0003body mass (VT:0001259)body weight (CMO:0000012)388910015133910015Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)394788365139788365Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)397009185142009185Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)399465522168732722Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)3100730984119830094Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)3101058963146058963Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3102152812155263151Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)3102466149147466149Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)3103141814176418101Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)3103141814176418101Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3103141814176418101Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3103141944170934860Rat
1582216Bw65Body weight QTL 656.3body mass (VT:0001259)body weight (CMO:0000012)3106900427119830094Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:84
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000051638
Prediction methods:Miranda
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 33 15 6 1 6 70 33 29 9
Low 3 10 42 35 18 35 8 9 4 2 7 2 8
Below cutoff 2 5

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234743 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234744 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000051638   ⟹   ENSRNOP00000047254
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3107,560,197 - 107,760,589 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077091   ⟹   ENSRNOP00000068546
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3107,559,997 - 107,760,550 (-)Ensembl
RefSeq Acc Id: NM_001107758   ⟹   NP_001101228
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,930 - 102,943,497 (-)NCBI
Rnor_6.03107,560,197 - 107,760,589 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
RGSC_v3.43101,915,966 - 102,117,215 (-)RGD
Celera3101,688,008 - 101,887,707 (-)RGD
Sequence:
RefSeq Acc Id: XM_006234743   ⟹   XP_006234805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03107,560,172 - 107,762,568 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234744   ⟹   XP_006234806
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03107,560,172 - 107,762,694 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234745   ⟹   XP_006234807
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03107,560,172 - 107,762,732 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234746   ⟹   XP_006234808
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
Rnor_6.03107,560,172 - 107,762,225 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234747   ⟹   XP_006234809
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,943,588 (-)NCBI
Rnor_6.03107,560,172 - 107,760,584 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234748   ⟹   XP_006234810
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,942,811 (-)NCBI
Rnor_6.03107,560,172 - 107,760,331 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234749   ⟹   XP_006234811
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,943,588 (-)NCBI
Rnor_6.03107,560,172 - 107,760,583 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234750   ⟹   XP_006234812
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
Rnor_6.03107,560,172 - 107,762,225 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234751   ⟹   XP_006234813
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
Rnor_6.03107,560,172 - 107,762,225 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234752   ⟹   XP_006234814
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,943,588 (-)NCBI
Rnor_6.03107,560,172 - 107,760,584 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234753   ⟹   XP_006234815
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,942,811 (-)NCBI
Rnor_6.03107,560,172 - 107,760,332 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234754   ⟹   XP_006234816
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,943,588 (-)NCBI
Rnor_6.03107,560,172 - 107,760,584 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006234755   ⟹   XP_006234817
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,942,811 (-)NCBI
Rnor_6.03107,560,172 - 107,760,331 (-)NCBI
Rnor_5.03114,124,722 - 114,327,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104936   ⟹   XP_038960864
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,944,833 (-)NCBI
RefSeq Acc Id: XM_039104937   ⟹   XP_038960865
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23102,742,905 - 102,942,811 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101228   ⟸   NM_001107758
- UniProtKB: D4A2T5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234813   ⟸   XM_006234751
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006234812   ⟸   XM_006234750
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006234807   ⟸   XM_006234745
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006234806   ⟸   XM_006234744
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006234805   ⟸   XM_006234743
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006234808   ⟸   XM_006234746
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006234811   ⟸   XM_006234749
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006234816   ⟸   XM_006234754
- Peptide Label: isoform X11
- UniProtKB: A0A0G2JT27 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234809   ⟸   XM_006234747
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006234814   ⟸   XM_006234752
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006234817   ⟸   XM_006234755
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006234815   ⟸   XM_006234753
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_006234810   ⟸   XM_006234748
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000068546   ⟸   ENSRNOT00000077091
RefSeq Acc Id: ENSRNOP00000047254   ⟸   ENSRNOT00000051638
RefSeq Acc Id: XP_038960864   ⟸   XM_039104936
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038960865   ⟸   XM_039104937
- Peptide Label: isoform X6
Protein Domains
Homeobox

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 114126094 114126095 G A snv SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), SS/JrHsdMcwi (KNAW), LN/MavRrrc (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), LL/MavRrrc (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 107561544 107561545 G A snv SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (RGD), SS/JrHsdMcwi (RGD), LL/MavRrrc (RGD), SR/JrHsd (RGD), SS/Jr (RGD), LN/MavRrrc (RGD)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 101917313 101917314 G A snv SS/JrHsdMcwi (MDC), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (ICL), SS/JrHsdMcwi (ICL), LN/MavRrrc (ICL), SR/JrHsd (ICL), SS/Jr (ICL), LL/MavRrrc (ICL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305198 AgrOrtholog
Ensembl Genes ENSRNOG00000004730 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000047254 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068546 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051638 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000077091 UniProtKB/TrEMBL
InterPro Homeobox_KN_domain UniProtKB/TrEMBL
  Homeodomain UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  PKNOX/Meis_N UniProtKB/TrEMBL
KEGG Report rno:311311 UniProtKB/TrEMBL
NCBI Gene 311311 ENTREZGENE
Pfam Homeobox_KN UniProtKB/TrEMBL
  Meis_PKNOX_N UniProtKB/TrEMBL
PhenoGen Meis2 PhenoGen
PROSITE HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A0G2JT27 ENTREZGENE, UniProtKB/TrEMBL
  D4A2T5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-03-18 Meis2  Meis homeobox 2  Meis2  Meis1, myeloid ecotropic viral integration site 1 homolog 2   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Meis2  Meis1, myeloid ecotropic viral integration site 1 homolog 2   Meis2_predicted  Meis1, myeloid ecotropic viral integration site 1 homolog 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Meis2_predicted  Meis1, myeloid ecotropic viral integration site 1 homolog 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED