Kcnq2 (potassium voltage-gated channel subfamily Q member 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Kcnq2 (potassium voltage-gated channel subfamily Q member 2) Rattus norvegicus
Analyze
Symbol: Kcnq2
Name: potassium voltage-gated channel subfamily Q member 2
RGD ID: 621504
Description: Enables protein N-terminus binding activity and voltage-gated potassium channel activity. Involved in potassium ion transmembrane transport. Located in plasma membrane. Is integral component of plasma membrane. Part of voltage-gated potassium channel complex. Human ortholog(s) of this gene implicated in benign neonatal seizures and developmental and epileptic encephalopathy 7. Orthologous to human KCNQ2 (potassium voltage-gated channel subfamily Q member 2); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: KQT-like 2; potassium channel subunit alpha KvLQT2; potassium channel, voltage-gated KQT-like subfamily Q, member 2; potassium voltage-gated channel subfamily KQT member 2; potassium voltage-gated channel, KQT-like subfamily, member 2; potassium voltage-gated channel, subfamily Q, member 2; voltage-gated potassium channel subunit Kv7.2
RGD Orthologs
Human
Mouse
Chinchilla
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
mRatBN7.23168,194,776 - 168,253,831 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl3168,195,357 - 168,275,071 (-)Ensembl
Rnor_6.03176,585,897 - 176,645,029 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,589,906 - 176,644,951 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,295,948 - 180,355,064 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,227,938 - 170,282,887 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13170,133,973 - 170,188,923 (-)NCBI
Celera3164,332,108 - 164,387,022 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9836639   PMID:10788442   PMID:10854243   PMID:12223552   PMID:16154661   PMID:16263935   PMID:16525039   PMID:16527853   PMID:16735477   PMID:17311847   PMID:17322297   PMID:17437547  
PMID:17442834   PMID:18048450   PMID:18089837   PMID:18827480   PMID:20885443   PMID:21345591   PMID:21750731   PMID:21787867   PMID:22871113   PMID:23352759   PMID:23623937   PMID:24349250  
PMID:24627475   PMID:25077630   PMID:25735002   PMID:25796298   PMID:27445338   PMID:27450567   PMID:27564677   PMID:27905566   PMID:29133175   PMID:29212407   PMID:29488002   PMID:32067988  
PMID:32739272   PMID:34318654  


Genomics

Comparative Map Data
Kcnq2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23168,194,776 - 168,253,831 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl3168,195,357 - 168,275,071 (-)Ensembl
Rnor_6.03176,585,897 - 176,645,029 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,589,906 - 176,644,951 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,295,948 - 180,355,064 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,227,938 - 170,282,887 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13170,133,973 - 170,188,923 (-)NCBI
Celera3164,332,108 - 164,387,022 (+)NCBICelera
Cytogenetic Map3q43NCBI
KCNQ2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2063,400,208 - 63,472,677 (-)EnsemblGRCh38hg38GRCh38
GRCh382063,400,208 - 63,472,655 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372062,031,561 - 62,104,008 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362061,507,986 - 61,574,437 (-)NCBINCBI36hg18NCBI36
Build 342061,535,475 - 61,574,437NCBI
Celera2058,714,783 - 58,784,129 (-)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2058,763,581 - 58,832,303 (-)NCBIHuRef
CHM1_12061,938,421 - 62,005,028 (-)NCBICHM1_1
Kcnq2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,717,372 - 180,777,368 (-)NCBIGRCm39mm39
GRCm39 Ensembl2180,717,372 - 180,777,093 (-)Ensembl
GRCm382181,075,579 - 181,135,580 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,075,579 - 181,135,300 (-)EnsemblGRCm38mm10GRCm38
MGSCv372180,810,284 - 180,869,930 (-)NCBIGRCm37mm9NCBIm37
MGSCv362181,004,987 - 181,064,633 (-)NCBImm8
Celera2185,162,036 - 185,221,619 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.57NCBI
Kcnq2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528737,416 - 791,321 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528737,416 - 792,885 (+)NCBIChiLan1.0ChiLan1.0
KCNQ2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,060,527 - 47,089,077 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2447,060,245 - 47,089,711 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,239,964 - 46,285,184 (-)NCBI
ROS_Cfam_1.02448,009,941 - 48,055,221 (-)NCBI
UMICH_Zoey_3.12447,025,196 - 47,070,380 (-)NCBI
UNSW_CanFamBas_1.02447,149,830 - 47,195,058 (-)NCBI
UU_Cfam_GSD_1.02447,905,637 - 47,933,777 (-)NCBI
Kcnq2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,281,604 - 195,334,016 (-)NCBI
SpeTri2.0NW_00493651410,735,247 - 10,787,682 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNQ2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,459,279 - 62,506,425 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,459,277 - 62,506,403 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
KCNQ2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12739,965 - 803,575 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2761,952 - 802,999 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605048,302,539 - 48,404,899 (+)NCBIVero_WHO_p1.0
Kcnq2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474129,089,894 - 29,143,681 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
UniSTS:495992  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,232,144 - 168,232,567 (+)MAPPERmRatBN7.2
Rnor_6.03176,623,361 - 176,623,783NCBIRnor6.0
Rnor_5.03180,333,393 - 180,333,815UniSTSRnor5.0
RGSC_v3.43170,261,294 - 170,261,716UniSTSRGSC3.4
Celera3164,353,265 - 164,353,687UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1707
Count of miRNA genes:256
Interacting mature miRNAs:317
Transcripts:ENSRNOT00000045508, ENSRNOT00000049961, ENSRNOT00000051170
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 68
Low 1 3 6 17
Below cutoff 2 13 22 11 17 11 7 8 29 21 11 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_133322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591443 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104177 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104182 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC125642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF087453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016947   ⟹   ENSRNOP00000016947
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,199,994 - 168,275,071 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000049961   ⟹   ENSRNOP00000040830
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,198,787 - 168,253,740 (-)Ensembl
Rnor_6.0 Ensembl3176,589,906 - 176,644,951 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094525   ⟹   ENSRNOP00000094215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,195,357 - 168,253,740 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102525   ⟹   ENSRNOP00000083195
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,198,787 - 168,253,740 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105837   ⟹   ENSRNOP00000094928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,198,787 - 168,253,740 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109229   ⟹   ENSRNOP00000094730
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,195,371 - 168,253,740 (-)Ensembl
RefSeq Acc Id: NM_133322   ⟹   NP_579856
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,198,787 - 168,253,740 (-)NCBI
Rnor_6.03176,589,906 - 176,644,951 (-)NCBI
Rnor_5.03180,295,948 - 180,355,064 (-)NCBI
RGSC_v3.43170,227,938 - 170,282,887 (-)RGD
Celera3164,332,108 - 164,387,022 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235721   ⟹   XP_006235783
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Rnor_5.03180,295,948 - 180,355,064 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235725   ⟹   XP_006235787
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Rnor_5.03180,295,948 - 180,355,064 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235727   ⟹   XP_006235789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,271 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Rnor_5.03180,295,948 - 180,355,064 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235729   ⟹   XP_006235791
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,271 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Rnor_5.03180,295,948 - 180,355,064 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008762462   ⟹   XP_008760684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,747 - 168,253,625 (-)NCBI
Rnor_6.03176,591,915 - 176,645,029 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591443   ⟹   XP_017446932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,271 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591445   ⟹   XP_017446934
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591446   ⟹   XP_017446935
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,271 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591447   ⟹   XP_017446936
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,200,271 - 168,253,625 (-)NCBI
Rnor_6.03176,585,897 - 176,645,028 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104177   ⟹   XP_038960105
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,831 (-)NCBI
RefSeq Acc Id: XM_039104178   ⟹   XP_038960106
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104180   ⟹   XP_038960108
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104181   ⟹   XP_038960109
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104182   ⟹   XP_038960110
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104183   ⟹   XP_038960111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104184   ⟹   XP_038960112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104185   ⟹   XP_038960113
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XM_039104186   ⟹   XP_038960114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,194,776 - 168,253,625 (-)NCBI
RefSeq Acc Id: XR_005501759
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,206,765 - 168,253,625 (-)NCBI
RefSeq Acc Id: XR_005501760
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,206,765 - 168,253,625 (-)NCBI
RefSeq Acc Id: XR_005501761
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,206,765 - 168,253,625 (-)NCBI
RefSeq Acc Id: XR_005501762
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,207,685 - 168,253,625 (-)NCBI
Protein Sequences
Protein RefSeqs NP_579856 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235783 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235787 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235789 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235791 (Get FASTA)   NCBI Sequence Viewer  
  XP_008760684 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446932 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446934 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446935 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446936 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960105 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960106 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960108 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960109 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960110 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960111 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960112 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960113 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960114 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC36722 (Get FASTA)   NCBI Sequence Viewer  
  EDL88759 (Get FASTA)   NCBI Sequence Viewer  
  EDL88760 (Get FASTA)   NCBI Sequence Viewer  
  EDL88761 (Get FASTA)   NCBI Sequence Viewer  
  EDL88762 (Get FASTA)   NCBI Sequence Viewer  
  EDL88763 (Get FASTA)   NCBI Sequence Viewer  
  EDL88764 (Get FASTA)   NCBI Sequence Viewer  
  EDL88765 (Get FASTA)   NCBI Sequence Viewer  
  EDL88766 (Get FASTA)   NCBI Sequence Viewer  
  EDL88767 (Get FASTA)   NCBI Sequence Viewer  
  O88943 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_579856   ⟸   NM_133322
- Sequence:
RefSeq Acc Id: XP_006235787   ⟸   XM_006235725
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_006235783   ⟸   XM_006235721
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006235791   ⟸   XM_006235729
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_006235789   ⟸   XM_006235727
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_008760684   ⟸   XM_008762462
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_017446934   ⟸   XM_017591445
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: XP_017446936   ⟸   XM_017591447
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: XP_017446935   ⟸   XM_017591446
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_017446932   ⟸   XM_017591443
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: ENSRNOP00000040830   ⟸   ENSRNOT00000049961
RefSeq Acc Id: XP_038960105   ⟸   XM_039104177
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038960113   ⟸   XM_039104185
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038960114   ⟸   XM_039104186
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038960110   ⟸   XM_039104182
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038960108   ⟸   XM_039104180
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038960111   ⟸   XM_039104183
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038960109   ⟸   XM_039104181
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960106   ⟸   XM_039104178
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960112   ⟸   XM_039104184
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000094215   ⟸   ENSRNOT00000094525
RefSeq Acc Id: ENSRNOP00000094730   ⟸   ENSRNOT00000109229
RefSeq Acc Id: ENSRNOP00000016947   ⟸   ENSRNOT00000016947
RefSeq Acc Id: ENSRNOP00000083195   ⟸   ENSRNOT00000102525
RefSeq Acc Id: ENSRNOP00000094928   ⟸   ENSRNOT00000105837
Protein Domains
Ion_trans   KCNQ_channel

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)
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
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)
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
ACI/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
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BN/SsN (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
BUF/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
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/NCrl (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
F344/NCrl (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
F344/NRrrc (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
F344/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
FHH/EurMcwi (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
FHH/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)
FHH/EurMcwi (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
FHL/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)
FHL/EurMcwi (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
FXLE16/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (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)
GK/FarMcwi (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
GK/Ox (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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/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
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)
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
LEW/Crl (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/NCrlBR (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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/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
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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
LEXF4/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/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
LH/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
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)
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
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)
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
PVG/Seac (2019)
Visual CSV TAB Printer