Btd (biotinidase) - Rat Genome Database

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Gene: Btd (biotinidase) Rattus norvegicus
Analyze
Symbol: Btd
Name: biotinidase
RGD ID: 1305316
Description: Predicted to enable biotinidase activity. Predicted to be involved in biotin metabolic process. Predicted to be located in apical part of cell; nucleolus; and perikaryon. Human ortholog(s) of this gene implicated in biotinidase deficiency. Orthologous to human BTD (biotinidase); PARTICIPATES IN biotin metabolic pathway; biotinidase deficiency pathway; holocarboxylase synthetase deficiency pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: biotinase; LOC306262; MGC109548
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
mRatBN7.2166,863,068 - 6,894,345 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl166,862,407 - 6,940,945 (+)Ensembl
Rnor_6.0167,758,192 - 7,791,301 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,758,996 - 7,791,243 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,682,657 - 7,712,878 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4167,111,351 - 7,141,809 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1167,111,348 - 7,141,804 (+)NCBI
Celera168,304,060 - 8,332,813 (-)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:12477932   PMID:16107307   PMID:16502470   PMID:21051254   PMID:23376485   PMID:23533145   PMID:24006456  


Genomics

Comparative Map Data
Btd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2166,863,068 - 6,894,345 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl166,862,407 - 6,940,945 (+)Ensembl
Rnor_6.0167,758,192 - 7,791,301 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,758,996 - 7,791,243 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,682,657 - 7,712,878 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4167,111,351 - 7,141,809 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1167,111,348 - 7,141,804 (+)NCBI
Celera168,304,060 - 8,332,813 (-)NCBICelera
Cytogenetic Map16p16NCBI
BTD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl315,601,341 - 15,722,311 (+)EnsemblGRCh38hg38GRCh38
GRCh38315,601,352 - 15,722,516 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37315,642,859 - 15,764,023 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36315,618,259 - 15,662,329 (+)NCBINCBI36hg18NCBI36
Build 34315,618,258 - 15,662,328NCBI
Celera315,581,404 - 15,625,466 (+)NCBI
Cytogenetic Map3p25.1NCBI
HuRef315,578,385 - 15,622,560 (+)NCBIHuRef
CHM1_1315,593,929 - 15,638,035 (+)NCBICHM1_1
Btd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391431,363,014 - 31,390,154 (+)NCBIGRCm39mm39
GRCm39 Ensembl1431,362,985 - 31,390,536 (+)Ensembl
GRCm381431,641,057 - 31,668,197 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,641,028 - 31,668,579 (+)EnsemblGRCm38mm10GRCm38
MGSCv371432,454,243 - 32,481,383 (+)NCBIGRCm37mm9NCBIm37
MGSCv361430,470,074 - 30,497,192 (+)NCBImm8
Celera1427,898,706 - 27,926,602 (+)NCBICelera
Cytogenetic Map14BNCBI
Btd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554307,960,039 - 7,988,754 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554307,960,036 - 7,988,754 (+)NCBIChiLan1.0ChiLan1.0
BTD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1315,863,489 - 15,909,314 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl315,863,489 - 15,907,497 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0315,526,339 - 15,575,475 (+)NCBIMhudiblu_PPA_v0panPan3
BTD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12327,037,640 - 27,069,544 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2327,037,921 - 27,069,456 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2327,012,382 - 27,044,383 (-)NCBI
ROS_Cfam_1.02327,540,852 - 27,572,601 (-)NCBI
ROS_Cfam_1.0 Ensembl2327,519,034 - 27,572,240 (-)Ensembl
UMICH_Zoey_3.12327,240,093 - 27,272,101 (-)NCBI
UNSW_CanFamBas_1.02327,302,059 - 27,333,910 (-)NCBI
UU_Cfam_GSD_1.02327,550,509 - 27,582,359 (-)NCBI
LOC101961662
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118169,648,806 - 169,684,493 (-)NCBI
SpeTri2.0NW_0049364732,787,386 - 2,823,014 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BTD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl132,840,456 - 2,903,680 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1132,840,425 - 2,902,619 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2132,928,781 - 2,991,255 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BTD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11560,433,035 - 60,470,600 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1560,459,913 - 60,470,615 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604133,465,427 - 33,511,091 (+)NCBIVero_WHO_p1.0
Btd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624821926,159 - 948,331 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH142734  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,894,136 - 6,894,251 (+)MAPPERmRatBN7.2
Rnor_6.0167,791,091 - 7,791,205NCBIRnor6.0
Rnor_5.0167,712,668 - 7,712,782UniSTSRnor5.0
RGSC_v3.4167,141,613 - 7,141,727UniSTSRGSC3.4
Celera168,304,142 - 8,304,256UniSTS
RH 3.4 Map1661.4UniSTS
Cytogenetic Map16p16UniSTS
RH143068  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,894,137 - 6,894,251 (+)MAPPERmRatBN7.2
Rnor_6.0167,791,092 - 7,791,205NCBIRnor6.0
Rnor_5.0167,712,669 - 7,712,782UniSTSRnor5.0
RGSC_v3.4167,141,614 - 7,141,727UniSTSRGSC3.4
Celera168,304,142 - 8,304,255UniSTS
RH 3.4 Map1661.4UniSTS
Cytogenetic Map16p16UniSTS
RH134579  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,887,839 - 6,888,024 (+)MAPPERmRatBN7.2
Rnor_6.0167,784,311 - 7,784,495NCBIRnor6.0
Rnor_5.0167,705,976 - 7,706,160UniSTSRnor5.0
RGSC_v3.4167,135,553 - 7,135,737UniSTSRGSC3.4
Celera168,310,364 - 8,310,548UniSTS
RH 3.4 Map1659.3UniSTS
Cytogenetic Map16p16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:35
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000061063
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 32 50 41 4 41 66 35 36 11
Low 11 7 15 8 11 8 5 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252617 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094454 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC090017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000061063   ⟹   ENSRNOP00000057779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,863,128 - 6,894,300 (+)Ensembl
Rnor_6.0 Ensembl167,758,996 - 7,791,243 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104796   ⟹   ENSRNOP00000094866
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl166,862,407 - 6,940,945 (+)Ensembl
RefSeq Acc Id: NM_001012047   ⟹   NP_001012047
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,865,548 - 6,894,333 (+)NCBI
Rnor_6.0167,760,640 - 7,791,287 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
RGSC_v3.4167,111,351 - 7,141,809 (+)RGD
Celera168,304,060 - 8,332,813 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252609   ⟹   XP_006252671
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
Rnor_6.0167,758,993 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252610   ⟹   XP_006252672
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,078 - 6,894,344 (+)NCBI
Rnor_6.0167,758,214 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252612   ⟹   XP_006252674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
Rnor_6.0167,758,219 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252614   ⟹   XP_006252676
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
Rnor_6.0167,758,240 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252615   ⟹   XP_006252677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,089 - 6,894,344 (+)NCBI
Rnor_6.0167,758,214 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252617   ⟹   XP_006252679
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,088 - 6,894,344 (+)NCBI
Rnor_6.0167,758,227 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252618   ⟹   XP_006252680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,085 - 6,894,344 (+)NCBI
Rnor_6.0167,758,214 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252619   ⟹   XP_006252681
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
Rnor_6.0167,758,192 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252622   ⟹   XP_006252684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,074 - 6,894,344 (+)NCBI
Rnor_6.0167,758,245 - 7,791,301 (+)NCBI
Rnor_5.0167,682,657 - 7,712,878 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770998   ⟹   XP_008769220
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,884,528 - 6,894,345 (+)NCBI
Rnor_6.0167,780,928 - 7,791,301 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600079   ⟹   XP_017455568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
Rnor_6.0167,758,192 - 7,791,301 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039094453   ⟹   XP_038950381
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,074 - 6,894,344 (+)NCBI
RefSeq Acc Id: XM_039094454   ⟹   XP_038950382
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
RefSeq Acc Id: XM_039094455   ⟹   XP_038950383
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
RefSeq Acc Id: XM_039094456   ⟹   XP_038950384
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
RefSeq Acc Id: XM_039094457   ⟹   XP_038950385
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,068 - 6,894,344 (+)NCBI
RefSeq Acc Id: XM_039094458   ⟹   XP_038950386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,863,085 - 6,894,344 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001012047   ⟸   NM_001012047
- Peptide Label: precursor
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252684   ⟸   XM_006252622
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252681   ⟸   XM_006252619
- Peptide Label: isoform X1
- UniProtKB: A0A140TAI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252680   ⟸   XM_006252618
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252674   ⟸   XM_006252612
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252677   ⟸   XM_006252615
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252679   ⟸   XM_006252617
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252672   ⟸   XM_006252610
- Peptide Label: isoform X1
- UniProtKB: A0A140TAI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252676   ⟸   XM_006252614
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252671   ⟸   XM_006252609
- Peptide Label: isoform X1
- UniProtKB: A0A140TAI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769220   ⟸   XM_008770998
- Peptide Label: isoform X1
- UniProtKB: A0A140TAI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455568   ⟸   XM_017600079
- Peptide Label: isoform X2
- UniProtKB: Q5FVF9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000057779   ⟸   ENSRNOT00000061063
RefSeq Acc Id: XP_038950384   ⟸   XM_039094456
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950385   ⟸   XM_039094457
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950382   ⟸   XM_039094454
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950383   ⟸   XM_039094455
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950381   ⟸   XM_039094453
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950386   ⟸   XM_039094458
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000094866   ⟸   ENSRNOT00000104796
Protein Domains
CN hydrolase

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)
Visual CSV TAB Printer
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)
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
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)
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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
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)
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
LL/MavRrrcAek (2020)
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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (2020)
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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
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)
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
MNS/Gib (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
MR/N (2020)
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: 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)
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
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)
Visual CSV TAB Printer
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)
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/OlalpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (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
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:1305316 AgrOrtholog
Ensembl Genes ENSRNOG00000019656 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000057779 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000094866 ENTREZGENE
Ensembl Transcript ENSRNOT00000061063 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000104796 ENTREZGENE
Gene3D-CATH 3.60.110.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7325227 IMAGE-MGC_LOAD
InterPro Biotinidase-like_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Biotinidase/VNN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-N_Hydrolase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-N_Hydrolase_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vanin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:306262 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109548 IMAGE-MGC_LOAD
NCBI Gene 306262 ENTREZGENE
PANTHER PTHR10609 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CN_hydrolase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vanin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Btd PhenoGen
PIRSF Biotinidase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CN_HYDROLASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56317 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A140TAI2 ENTREZGENE, UniProtKB/TrEMBL
  BTD_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Btd  biotinidase  Btd_predicted  biotinidase (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Btd_predicted  biotinidase (predicted)      Symbol and Name status set to approved 70820 APPROVED