Yap1 (Yes1 associated transcriptional regulator) - Rat Genome Database

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Gene: Yap1 (Yes1 associated transcriptional regulator) Rattus norvegicus
Analyze
Symbol: Yap1
Name: Yes1 associated transcriptional regulator
RGD ID: 1306035
Description: Predicted to enable several functions, including proline-rich region binding activity; protein C-terminus binding activity; and transcription coactivator activity. Predicted to be involved in several processes, including positive regulation of cell population proliferation; regulation of gene expression; and response to steroid hormone. Predicted to act upstream of or within several processes, including animal organ development; regulation of epithelial cell differentiation; and regulation of signal transduction. Predicted to be located in cytosol; female germ cell nucleus; and membrane. Predicted to be part of TEAD-YAP complex. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in uveal coloboma-cleft lip and palate-intellectual disability. Orthologous to human YAP1 (Yes1 associated transcriptional regulator); PARTICIPATES IN transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 65 kDa Yes-associated protein; LOC363014; transcriptional coactivator YAP1; Yap; YAP65; yes-associated protein; yes-associated protein 1; yes-associated protein YAP65 homolog; yorkie homolog
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
mRatBN7.285,095,705 - 5,166,808 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl85,095,722 - 5,167,010 (-)Ensembl
Rnor_6.086,133,014 - 6,204,240 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl86,135,493 - 6,203,579 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.086,131,653 - 6,202,586 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.484,780,845 - 4,848,881 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.184,780,674 - 4,881,302 (-)NCBI
Celera86,655,412 - 6,723,571 (-)NCBICelera
Cytogenetic Map8q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(20S)-ginsenoside Rg3  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
acetamide  (EXP)
aconitine  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
captan  (ISO)
carbamazepine  (ISO)
chlorpromazine  (ISO)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cycloheximide  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fisetin  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gemcitabine  (ISO)
gingerol  (ISO)
glyphosate  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
jaspamide  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
limonin  (ISO)
MeIQx  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosodiethylamine  (ISO)
ochratoxin A  (EXP)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraoxon  (ISO)
parathion  (ISO)
pentachlorophenol  (ISO)
phenylmercury acetate  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sorafenib  (ISO)
sunitinib  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP,ISO)
theophylline  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vemurafenib  (ISO)
verteporfin  (ISO)
vinclozolin  (EXP,ISO)
wortmannin  (ISO)
zearalenone  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
blastocyst development  (ISO)
bud elongation involved in lung branching  (ISO)
cardiac muscle tissue regeneration  (ISO)
cell morphogenesis  (ISO)
cell population proliferation  (ISO)
cellular response to DNA damage stimulus  (ISO)
cellular response to gamma radiation  (ISO,ISS)
cellular response to retinoic acid  (ISO)
contact inhibition  (ISO)
DNA damage induced protein phosphorylation  (ISS)
embryonic heart tube morphogenesis  (ISO)
heart process  (ISO)
hippo signaling  (IBA,ISO)
interleukin-6-mediated signaling pathway  (ISO)
intestinal epithelial cell development  (ISO)
keratinocyte differentiation  (ISO)
lateral mesoderm development  (ISO)
lung epithelial cell differentiation  (ISO)
negative regulation of cilium assembly  (ISO,ISS)
negative regulation of epithelial cell apoptotic process  (ISO)
negative regulation of epithelial cell differentiation  (ISO)
negative regulation of extrinsic apoptotic signaling pathway  (ISO)
negative regulation of fat cell differentiation  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of stem cell differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO,ISS)
notochord development  (ISO)
paraxial mesoderm development  (ISO)
positive regulation of canonical Wnt signaling pathway  (ISO)
positive regulation of cardiac muscle cell proliferation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of epithelial cell proliferation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of intracellular estrogen receptor signaling pathway  (ISO)
positive regulation of Notch signaling pathway  (ISO)
positive regulation of organ growth  (ISO)
positive regulation of osteoblast differentiation  (ISO)
positive regulation of protein localization to nucleus  (ISO,ISS)
positive regulation of stem cell population maintenance  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
progesterone receptor signaling pathway  (ISO)
protein-containing complex assembly  (ISO)
regulation of canonical Wnt signaling pathway  (ISO)
regulation of cell population proliferation  (ISO)
regulation of gene expression  (ISO)
regulation of keratinocyte proliferation  (ISO)
regulation of metanephric nephron tubule epithelial cell differentiation  (ISO)
regulation of neurogenesis  (ISO)
regulation of stem cell proliferation  (ISO)
response to progesterone  (ISO)
somatic stem cell population maintenance  (ISO)
tissue homeostasis  (ISO)
trophectodermal cell differentiation  (ISO)
vasculogenesis  (ISO)
wound healing  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9305852   PMID:12477932   PMID:16207754   PMID:16332960   PMID:16354681   PMID:16461361   PMID:16772533   PMID:17689488   PMID:17974916   PMID:17980593   PMID:18158288   PMID:18280240  
PMID:18332127   PMID:18369314   PMID:19004856   PMID:19289085   PMID:19853564   PMID:19952108   PMID:20123905   PMID:20368466   PMID:20516196   PMID:20868367   PMID:21385842   PMID:21512031  
PMID:22232070   PMID:22308401   PMID:22411986   PMID:22529382   PMID:22922963   PMID:23442010   PMID:23543231   PMID:23824537   PMID:23863479   PMID:23918388   PMID:23974041   PMID:23998984  
PMID:24147051   PMID:24875096   PMID:25043473   PMID:25249570   PMID:25433207   PMID:25796446   PMID:26306672   PMID:26333362   PMID:26574480   PMID:26625714   PMID:26694636   PMID:26902285  
PMID:27288457   PMID:27359056   PMID:27369082   PMID:27371368   PMID:27683908   PMID:27889666   PMID:28087714   PMID:28169360   PMID:28428044   PMID:28552397   PMID:28642262   PMID:28915934  
PMID:28951205   PMID:29066438   PMID:29355736   PMID:29356923   PMID:29403039   PMID:29403552   PMID:30039887   PMID:31325776   PMID:31518341   PMID:31940260   PMID:32059976   PMID:32111918  
PMID:32239716   PMID:32451801   PMID:32951332   PMID:33236141   PMID:33296068   PMID:33610591   PMID:34062912  


Genomics

Comparative Map Data
Yap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.285,095,705 - 5,166,808 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl85,095,722 - 5,167,010 (-)Ensembl
Rnor_6.086,133,014 - 6,204,240 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl86,135,493 - 6,203,579 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.086,131,653 - 6,202,586 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.484,780,845 - 4,848,881 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.184,780,674 - 4,881,302 (-)NCBI
Celera86,655,412 - 6,723,571 (-)NCBICelera
Cytogenetic Map8q11NCBI
YAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl11102,110,447 - 102,233,424 (+)EnsemblGRCh38hg38GRCh38
GRCh3811102,109,957 - 102,233,424 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3711101,981,178 - 102,104,155 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611101,486,541 - 101,609,359 (+)NCBINCBI36hg18NCBI36
Build 3411101,486,540 - 101,609,356NCBI
Celera1199,142,746 - 99,265,700 (+)NCBI
Cytogenetic Map11q22.1NCBI
HuRef1197,907,865 - 98,030,476 (+)NCBIHuRef
CHM1_111101,864,181 - 101,987,123 (+)NCBICHM1_1
Yap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3997,932,000 - 8,004,890 (-)NCBIGRCm39mm39
GRCm39 Ensembl97,932,000 - 8,004,597 (-)Ensembl
GRCm3897,931,999 - 8,004,638 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl97,931,999 - 8,004,596 (-)EnsemblGRCm38mm10GRCm38
MGSCv3797,931,999 - 8,004,596 (-)NCBIGRCm37mm9NCBIm37
MGSCv3697,932,520 - 8,005,109 (-)NCBImm8
Celera95,324,108 - 5,396,890 (-)NCBICelera
Cytogenetic Map9A1NCBI
Yap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554125,423,855 - 5,534,408 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554125,423,866 - 5,533,728 (+)NCBIChiLan1.0ChiLan1.0
YAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111100,556,689 - 100,681,301 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11100,552,424 - 100,681,301 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01197,061,367 - 97,186,961 (+)NCBIMhudiblu_PPA_v0panPan3
YAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1529,394,760 - 29,495,977 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl529,394,541 - 29,496,251 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha529,340,746 - 29,445,498 (-)NCBI
ROS_Cfam_1.0529,444,603 - 29,550,383 (-)NCBI
UMICH_Zoey_3.1529,501,168 - 29,606,791 (-)NCBI
UNSW_CanFamBas_1.0529,358,262 - 29,463,735 (-)NCBI
UU_Cfam_GSD_1.0529,533,412 - 29,638,553 (-)NCBI
Yap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494785,795,986 - 85,901,455 (+)NCBI
SpeTri2.0NW_0049365515,638,383 - 5,740,523 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
YAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl932,811,416 - 32,925,603 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1932,811,629 - 32,924,926 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2936,760,481 - 36,872,904 (+)NCBISscrofa10.2Sscrofa10.2susScr3
YAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1193,479,478 - 93,605,340 (+)NCBI
ChlSab1.1 Ensembl193,479,135 - 93,606,808 (+)Ensembl
Vero_WHO_p1.0NW_02366604332,256,708 - 32,382,950 (-)NCBI
Yap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624878621,214 - 776,363 (-)NCBI


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:378
Count of miRNA genes:134
Interacting mature miRNAs:148
Transcripts:ENSRNOT00000007866, ENSRNOT00000008074, ENSRNOT00000031189
Prediction methods:Microtar, 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 43 51 41 13 41 8 11 61 35 40 11 8
Low 1 6 6 13 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001034002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001394328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001394329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_172096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765893 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide DQ186896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ376007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000007866   ⟹   ENSRNOP00000007866
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl85,095,722 - 5,167,010 (-)Ensembl
Rnor_6.0 Ensembl86,140,270 - 6,203,579 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000008074   ⟹   ENSRNOP00000008074
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl85,098,233 - 5,167,010 (-)Ensembl
Rnor_6.0 Ensembl86,135,542 - 6,203,579 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000031189   ⟹   ENSRNOP00000034369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl85,095,739 - 5,167,010 (-)Ensembl
Rnor_6.0 Ensembl86,135,542 - 6,203,579 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085285   ⟹   ENSRNOP00000074302
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl85,095,739 - 5,167,010 (-)Ensembl
Rnor_6.0 Ensembl86,135,542 - 6,203,579 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087278   ⟹   ENSRNOP00000071631
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl85,098,233 - 5,167,010 (-)Ensembl
Rnor_6.0 Ensembl86,135,493 - 6,203,515 (-)Ensembl
RefSeq Acc Id: NM_001034002   ⟹   NP_001029174
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,098,233 - 5,166,388 (-)NCBI
Rnor_6.086,135,542 - 6,203,579 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
RGSC_v3.484,780,845 - 4,848,881 (-)RGD
Celera86,655,412 - 6,723,571 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242488   ⟹   XP_006242550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,808 (-)NCBI
Rnor_6.086,133,014 - 6,204,240 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242489   ⟹   XP_006242551
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,794 (-)NCBI
Rnor_6.086,133,014 - 6,204,236 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242490   ⟹   XP_006242552
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,802 (-)NCBI
Rnor_6.086,133,014 - 6,204,238 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242491   ⟹   XP_006242553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,788 (-)NCBI
Rnor_6.086,133,014 - 6,204,234 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242492   ⟹   XP_006242554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,797 (-)NCBI
Rnor_6.086,133,014 - 6,204,237 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242493   ⟹   XP_006242555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,782 (-)NCBI
Rnor_6.086,133,014 - 6,204,232 (-)NCBI
Rnor_5.086,131,653 - 6,202,586 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765893   ⟹   XP_008764115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,806 (-)NCBI
Rnor_6.086,133,014 - 6,204,239 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765894   ⟹   XP_008764116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.285,095,705 - 5,166,792 (-)NCBI
Rnor_6.086,133,014 - 6,204,235 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001029174   ⟸   NM_001034002
- Sequence:
RefSeq Acc Id: XP_006242552   ⟸   XM_006242490
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006242550   ⟸   XM_006242488
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242551   ⟸   XM_006242489
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006242554   ⟸   XM_006242492
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006242553   ⟸   XM_006242491
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242555   ⟸   XM_006242493
- Peptide Label: isoform X8
- UniProtKB: Q2EJA0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008764115   ⟸   XM_008765893
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008764116   ⟸   XM_008765894
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000034369   ⟸   ENSRNOT00000031189
RefSeq Acc Id: ENSRNOP00000008074   ⟸   ENSRNOT00000008074
RefSeq Acc Id: ENSRNOP00000074302   ⟸   ENSRNOT00000085285
RefSeq Acc Id: ENSRNOP00000071631   ⟸   ENSRNOT00000087278
RefSeq Acc Id: ENSRNOP00000007866   ⟸   ENSRNOT00000007866
Protein Domains
WW

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 (2019)
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Sequenced By: MCW
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/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 (2020)
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Sequenced By: MCW
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
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-Lx/CubMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/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 (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/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
F344/Stm (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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
FXLE16/Stm (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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/FarMcwi (2019)
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Sequenced By: MCW
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
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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 (2019)
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Sequenced By: MCW
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
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
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/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/MavRrrcAek (2020)
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Sequenced By: MCW
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/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/MavRrrcAek (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
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 (2020)
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Sequenced By: MCW
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
MR/N (MCW)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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)
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
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)
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
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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 (2020)
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Sequenced By: MCW
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
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 (2019)
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Sequenced By: MCW
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
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)
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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
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
WAG/RijCrl (2020)
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Sequenced By: MCW
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/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 (2020)
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Sequenced By: MCW
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/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 (2019)
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Sequenced By: MCW
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/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 (2020)
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Sequenced By: MCW
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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306035 AgrOrtholog
Ensembl Genes ENSRNOG00000005933 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000007866 UniProtKB/TrEMBL
  ENSRNOP00000008074 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000034369 UniProtKB/Swiss-Prot
  ENSRNOP00000071631 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000074302 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000007866 UniProtKB/TrEMBL
  ENSRNOT00000008074 UniProtKB/Swiss-Prot
  ENSRNOT00000031189 UniProtKB/Swiss-Prot
  ENSRNOT00000085285 UniProtKB/Swiss-Prot
  ENSRNOT00000087278 UniProtKB/TrEMBL
InterPro WW_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363014 UniProtKB/Swiss-Prot
NCBI Gene 363014 ENTREZGENE
Pfam PF00397 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Yap1 PhenoGen
PROSITE WW_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WW_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00456 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51045 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K0Y6_RAT UniProtKB/TrEMBL
  Q2EJA0 ENTREZGENE
  R9PXS9_RAT UniProtKB/TrEMBL
  YAP1_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q3LRU4 UniProtKB/Swiss-Prot
  Q3LRU5 UniProtKB/Swiss-Prot
  Q3LRU6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-01-09 Yap1  Yes1 associated transcriptional regulator  Yap1  yes-associated protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Yap1  yes-associated protein 1  Yap  yes-associated protein  Symbol and Name updated 1299863 APPROVED
2005-12-06 Yap  yes-associated protein  Yap_predicted  yes-associated protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Yap_predicted  yes-associated protein (predicted)      Symbol and Name status set to approved 70820 APPROVED