Piezo2 (piezo-type mechanosensitive ion channel component 2) - Rat Genome Database

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Gene: Piezo2 (piezo-type mechanosensitive ion channel component 2) Rattus norvegicus
Analyze
Symbol: Piezo2
Name: piezo-type mechanosensitive ion channel component 2
RGD ID: 1582973
Description: Predicted to have cation channel activity and mechanosensitive ion channel activity. Predicted to be involved in several processes, including cellular response to mechanical stimulus; detection of mechanical stimulus involved in sensory perception; and regulation of membrane potential. Predicted to localize to plasma membrane. Human ortholog(s) of this gene implicated in distal arthrogryposis type 3 and distal arthrogryposis type 5. Orthologous to human PIEZO2 (piezo type mechanosensitive ion channel component 2); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: MODEL
Also known as: Fam38b; family with sequence similarity 38, member B; LOC307380; LOC688934; RGD1306866; similar to Hypothetical protein KIAA0233; similar to protein fam38b
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
mRatBN7.21856,468,449 - 56,844,984 (-)NCBI
Rnor_6.0 Ensembl1858,354,648 - 58,499,836 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01858,353,361 - 58,728,555 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01857,576,278 - 57,949,635 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41859,147,791 - 59,531,873 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11859,220,826 - 59,402,111 (-)NCBI
Celera1854,616,241 - 54,988,723 (-)NCBICelera
Cytogenetic Map18q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:20813920   PMID:24344923   PMID:24717433   PMID:24746027   PMID:24911969   PMID:26929410   PMID:27481627  


Genomics

Comparative Map Data
Piezo2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21856,468,449 - 56,844,984 (-)NCBI
Rnor_6.0 Ensembl1858,354,648 - 58,499,836 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01858,353,361 - 58,728,555 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01857,576,278 - 57,949,635 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41859,147,791 - 59,531,873 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11859,220,826 - 59,402,111 (-)NCBI
Celera1854,616,241 - 54,988,723 (-)NCBICelera
Cytogenetic Map18q12.1NCBI
PIEZO2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1810,666,483 - 11,148,762 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1810,666,483 - 11,149,569 (-)EnsemblGRCh38hg38GRCh38
GRCh381810,670,237 - 11,149,585 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371810,670,244 - 11,149,568 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361810,660,850 - 10,687,814 (-)NCBINCBI36hg18NCBI36
Build 341810,660,859 - 10,687,814NCBI
Celera1810,552,160 - 11,030,879 (-)NCBI
Cytogenetic Map18p11.22-p11.21NCBI
HuRef1810,624,312 - 11,102,956 (-)NCBIHuRef
CHM1_11810,669,431 - 11,148,579 (-)NCBICHM1_1
Piezo2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391863,143,284 - 63,520,787 (-)NCBIGRCm39mm39
GRCm39 Ensembl1863,143,284 - 63,520,254 (-)Ensembl
GRCm381863,010,213 - 63,387,716 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1863,010,213 - 63,387,183 (-)EnsemblGRCm38mm10GRCm38
MGSCv371863,169,867 - 63,546,837 (-)NCBIGRCm37mm9NCBIm37
MGSCv361863,167,798 - 63,511,826 (-)NCBImm8
Celera1864,286,871 - 64,658,106 (-)NCBICelera
Cytogenetic Map18E1NCBI
Piezo2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554021,650,726 - 1,871,876 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554021,534,619 - 1,873,143 (+)NCBIChiLan1.0ChiLan1.0
PIEZO2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1185,407,467 - 5,884,207 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl185,407,467 - 5,882,928 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0183,141,285 - 3,619,885 (+)NCBIMhudiblu_PPA_v0panPan3
PIEZO2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1776,477,628 - 76,918,660 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl776,478,928 - 76,919,723 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha775,880,977 - 76,321,043 (-)NCBI
ROS_Cfam_1.0776,533,250 - 76,973,897 (-)NCBI
UMICH_Zoey_3.1776,231,312 - 76,673,520 (-)NCBI
UNSW_CanFamBas_1.0776,259,881 - 76,700,879 (-)NCBI
UU_Cfam_GSD_1.0776,564,098 - 77,004,969 (-)NCBI
Piezo2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049441,573,205 - 1,912,950 (+)NCBI
SpeTri2.0NW_004936626802,415 - 1,141,260 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PIEZO2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl697,643,366 - 97,944,418 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1697,644,115 - 97,945,693 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PIEZO2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11870,161,961 - 70,623,912 (+)NCBI
ChlSab1.1 Ensembl1870,246,132 - 70,622,611 (+)Ensembl
Piezo2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477018,835,706 - 19,157,177 (-)NCBI

Position Markers
D18Rat41  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21856,594,589 - 56,594,808 (+)MAPPER
Rnor_6.01858,476,128 - 58,476,346NCBIRnor6.0
Rnor_5.01857,699,045 - 57,699,263UniSTSRnor5.0
RGSC_v3.41859,279,067 - 59,279,285UniSTSRGSC3.4
RGSC_v3.41859,279,066 - 59,279,285RGDRGSC3.4
RGSC_v3.11859,352,268 - 59,352,486RGD
Celera1854,738,316 - 54,738,534UniSTS
RH 3.4 Map18558.8RGD
RH 3.4 Map18558.8UniSTS
RH 2.0 Map18343.2RGD
SHRSP x BN Map1825.0199RGD
FHH x ACI Map1839.06RGD
Cytogenetic Map18q12.1UniSTS
BE106644  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21856,469,269 - 56,469,448 (+)MAPPER
Rnor_6.01858,354,182 - 58,354,360NCBIRnor6.0
Rnor_5.01857,577,099 - 57,577,277UniSTSRnor5.0
RGSC_v3.41859,147,796 - 59,147,974UniSTSRGSC3.4
Celera1854,617,062 - 54,617,240UniSTS
RH 3.4 Map18567.0UniSTS
Cytogenetic Map18q12.1UniSTS
RH141033  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21856,477,591 - 56,477,772 (+)MAPPER
Rnor_6.01858,362,503 - 58,362,683NCBIRnor6.0
Rnor_5.01857,585,420 - 57,585,600UniSTSRnor5.0
RGSC_v3.41859,156,117 - 59,156,297UniSTSRGSC3.4
Celera1854,625,383 - 54,625,563UniSTS
RH 3.4 Map18555.1UniSTS
Cytogenetic Map18q12.1UniSTS
AW533757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21856,469,095 - 56,469,291 (+)MAPPER
Rnor_6.01858,354,008 - 58,354,203NCBIRnor6.0
Rnor_5.01857,576,925 - 57,577,120UniSTSRnor5.0
RGSC_v3.41859,147,622 - 59,147,817UniSTSRGSC3.4
Celera1854,616,888 - 54,617,083UniSTS
RH 3.4 Map18569.3UniSTS
Cytogenetic Map18q12.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18440751362570466Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181467885259678852Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181553942761499684Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553967161985648Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181569587268524999Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181903103068436105Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142163949166639491Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
6903353Bp353Blood pressure QTL 3532.8arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260476461985648Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)183053361475533614Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183136134176361341Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183136134176361341Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183136134176361341Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183136134176361341Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183160842476608424Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183172837362570429Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183267035261985812Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035263897621Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183267035273016546Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183267035287080053Rat
6903347Bp350Blood pressure QTL 3504.4arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267047361985648Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183270402280696226Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183822191983221919Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184037576985375769Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184500219488201929Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184631947688201929Rat
1331806Bp229Blood pressure QTL 2294.36484arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184824887759473805Rat
1331736Bp227Blood pressure QTL 2272.791arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)184824887761985812Rat
1331780Bp238Blood pressure QTL 2383.269arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184824887761985812Rat
6903345Bp349Blood pressure QTL 3493.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184824904861985648Rat
6903349Bp351Blood pressure QTL 3513.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184824904861985648Rat
6903351Bp352Blood pressure QTL 3523.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184824904861985648Rat
61360EaeyExperimental allergic encephalomyelitis QTL y3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)184851929962570427Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184913092088201929Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184913092088201929Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184913092088201929Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185137581688201929Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185137581688201929Rat
7411719Strs5Sensitivity to stroke QTL 59.4cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)185160903267502266Rat
2293658Bmd23Bone mineral density QTL 237.30.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)185303349468524999Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185303349487080053Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185386125261985812Rat
1331752Bw27Body weight QTL 272.963body mass (VT:0001259)body weight (CMO:0000012)185386125267502266Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185386125277151443Rat
1600375Mcs22Mammary carcinoma susceptibility QTL 223.3mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)185410837568819562Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)185410837571692768Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185410837579575348Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)185410837579575348Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)185410837579575348Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)185410837579575348Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)185410837579575348Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)185410837579575348Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)185410837579575348Rat
1300125Rf26Renal function QTL 263.2urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)185410847467502122Rat
1558649Bw58Body weight QTL 583.40.0005body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893359Bw103Body weight QTL 1031.20.12body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893368Bw107Body weight QTL 1070.30.5body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185819630088201929Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:202
Count of miRNA genes:148
Interacting mature miRNAs:164
Transcripts:ENSRNOT00000000129, ENSRNOT00000025556, ENSRNOT00000065693
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 22 23 11
Low 2 33 40 26 19 26 7 8 70 13 16 7
Below cutoff 1 10 15 15 15 1 3 4 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_001063568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587881 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_225880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005496481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000025556   ⟹   ENSRNOP00000025552
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1858,411,533 - 58,423,196 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000065693   ⟹   ENSRNOP00000063723
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1858,354,648 - 58,499,836 (-)Ensembl
RefSeq Acc Id: XM_001063568   ⟹   XP_001063568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006222595   ⟹   XP_006222657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006254839   ⟹   XP_006254901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,983 (-)NCBI
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Rnor_5.01857,576,278 - 57,949,635 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587875   ⟹   XP_017443364
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587876   ⟹   XP_017443365
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587877   ⟹   XP_017443366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587878   ⟹   XP_017443367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,721 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587879   ⟹   XP_017443368
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587880   ⟹   XP_017443369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587881   ⟹   XP_017443370
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,616,241 - 54,988,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017587882   ⟹   XP_017443371
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1854,622,985 - 54,988,723 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601114   ⟹   XP_017456603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601115   ⟹   XP_017456604
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601116   ⟹   XP_017456605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601117   ⟹   XP_017456606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,553 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601118   ⟹   XP_017456607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601119   ⟹   XP_017456608
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601120   ⟹   XP_017456609
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601121   ⟹   XP_017456610
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01858,360,105 - 58,728,555 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039097388   ⟹   XP_038953316
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,983 (-)NCBI
RefSeq Acc Id: XM_039097389   ⟹   XP_038953317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,983 (-)NCBI
RefSeq Acc Id: XM_039097390   ⟹   XP_038953318
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,983 (-)NCBI
RefSeq Acc Id: XM_039097391   ⟹   XP_038953319
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,983 (-)NCBI
RefSeq Acc Id: XM_039097392   ⟹   XP_038953320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,564,341 (-)NCBI
RefSeq Acc Id: XM_225880   ⟹   XP_225880
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,468,449 - 56,844,982 (-)NCBI
Rnor_6.01858,353,361 - 58,728,552 (-)NCBI
Rnor_5.01857,576,278 - 57,949,635 (-)NCBI
RGSC_v3.41859,147,791 - 59,531,873 (-)RGD
Sequence:
RefSeq Acc Id: XR_005496481
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21856,473,544 - 56,844,984 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_225880   ⟸   XM_225880
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_001063568   ⟸   XM_001063568
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006222657   ⟸   XM_006222595
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006254901   ⟸   XM_006254839
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017443367   ⟸   XM_017587878
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017443366   ⟸   XM_017587877
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017443368   ⟸   XM_017587879
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017443365   ⟸   XM_017587876
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017443369   ⟸   XM_017587880
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017443370   ⟸   XM_017587881
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017443364   ⟸   XM_017587875
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017443371   ⟸   XM_017587882
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017456606   ⟸   XM_017601117
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017456605   ⟸   XM_017601116
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017456607   ⟸   XM_017601118
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017456604   ⟸   XM_017601115
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017456608   ⟸   XM_017601119
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017456609   ⟸   XM_017601120
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017456603   ⟸   XM_017601114
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456610   ⟸   XM_017601121
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: ENSRNOP00000063723   ⟸   ENSRNOT00000065693
RefSeq Acc Id: ENSRNOP00000025552   ⟸   ENSRNOT00000025556
RefSeq Acc Id: XP_038953318   ⟸   XM_039097390
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038953316   ⟸   XM_039097388
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953317   ⟸   XM_039097389
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953319   ⟸   XM_039097391
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038953320   ⟸   XM_039097392
- Peptide Label: isoform X7
Protein Domains
PIEZO   Piezo_RRas_bdg

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)
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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
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
18 57613292 57613293 T C snv F344/DuCrlCrlj (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1582973 AgrOrtholog
Ensembl Genes ENSRNOG00000038784 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025552 UniProtKB/TrEMBL
  ENSRNOP00000063723 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025556 UniProtKB/TrEMBL
  ENSRNOT00000065693 UniProtKB/TrEMBL
InterPro Piezo UniProtKB/TrEMBL
  Piezo_dom UniProtKB/TrEMBL
  Piezo_RRas-bd_dom UniProtKB/TrEMBL
NCBI Gene 307380 ENTREZGENE
PANTHER PTHR13167 UniProtKB/TrEMBL
Pfam DUF3595 UniProtKB/TrEMBL
  PIEZO UniProtKB/TrEMBL
PhenoGen Piezo2 PhenoGen
UniProt D3ZXL7_RAT UniProtKB/TrEMBL
  F1M208_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-09-29 Piezo2  piezo-type mechanosensitive ion channel component 2  Fam38b  family with sequence similarity 38, member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-12-10 Fam38b  family with sequence similarity 38, member B  RGD1306866  similar to Hypothetical protein KIAA0233  Data Merged 737654 APPROVED
2008-07-08 Fam38b  family with sequence similarity 38, member B  LOC682475  similar to Protein FAM38B  Data Merged 1643240 APPROVED
2008-04-30 RGD1306866  similar to Hypothetical protein KIAA0233   RGD1306866_predicted  similar to Hypothetical protein KIAA0233 (predicted)  'predicted' is removed 2292626 APPROVED
2008-03-06 Fam38b  family with sequence similarity 38, member B  LOC688934  similar to Protein FAM38B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC688934  similar to Protein FAM38B      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682475  similar to Protein FAM38B      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1306866_predicted  similar to Hypothetical protein KIAA0233 (predicted)  LOC307380_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307380_predicted  similar to Hypothetical protein KIAA0233 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL