Clasp2 (cytoplasmic linker associated protein 2) - Rat Genome Database

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Gene: Clasp2 (cytoplasmic linker associated protein 2) Rattus norvegicus
Analyze
Symbol: Clasp2
Name: cytoplasmic linker associated protein 2
RGD ID: 619789
Description: Enables microtubule binding activity. Involved in cellular response to insulin stimulus; negative regulation of microtubule depolymerization; and positive regulation of protein localization to membrane. Located in microtubule and ruffle membrane. Orthologous to human CLASP2 (cytoplasmic linker associated protein 2); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: CLIP associating protein 2; CLIP-associating protein 2; cytoplasmic linker-associated protein 2
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
mRatBN7.28113,677,345 - 113,859,957 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
Rnor_6.08122,003,719 - 122,185,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8122,003,916 - 122,185,495 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08121,317,262 - 121,499,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48118,454,426 - 118,562,702 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18118,473,880 - 118,582,155 (+)NCBI
Celera8112,998,712 - 113,106,880 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cell division  (IEA)
cell migration  (ISO)
cellular response to insulin stimulus  (IEP)
establishment of mitotic spindle localization  (IBA)
establishment or maintenance of cell polarity  (ISO)
exit from mitosis  (ISO,ISS)
Golgi organization  (ISO,ISS)
microtubule anchoring  (ISO,ISS)
microtubule cytoskeleton organization  (IBA,ISO,ISS)
microtubule nucleation  (ISO,ISS)
microtubule organizing center organization  (ISO,ISS)
mitotic spindle assembly  (IBA)
mitotic spindle organization  (ISO,ISS)
negative regulation of focal adhesion assembly  (ISO)
negative regulation of microtubule depolymerization  (IDA,ISO)
negative regulation of stress fiber assembly  (ISO)
negative regulation of wound healing, spreading of epidermal cells  (ISO)
platelet-derived growth factor receptor-beta signaling pathway  (ISO)
positive regulation of basement membrane assembly involved in embryonic body morphogenesis  (ISO)
positive regulation of epithelial cell migration  (ISO)
positive regulation of exocytosis  (ISO)
positive regulation of extracellular matrix disassembly  (ISO)
positive regulation of protein localization to membrane  (IMP)
protein localization to plasma membrane  (ISO)
regulation of actin cytoskeleton organization  (ISO)
regulation of axon extension  (ISO)
regulation of epithelial to mesenchymal transition  (ISO)
regulation of gastrulation  (ISO)
regulation of microtubule polymerization  (ISO)
regulation of microtubule polymerization or depolymerization  (ISO)
regulation of microtubule-based process  (ISO,ISS)
vesicle targeting  (ISO)

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:16866869   PMID:17113391   PMID:17543864   PMID:19632184   PMID:19946888   PMID:20937854   PMID:22871113   PMID:23940118   PMID:24211587   PMID:24520051   PMID:24859005   PMID:25265211  
PMID:25344256   PMID:26003921   PMID:29476059   PMID:30053369  


Genomics

Comparative Map Data
Clasp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28113,677,345 - 113,859,957 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
Rnor_6.08122,003,719 - 122,185,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8122,003,916 - 122,185,495 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08121,317,262 - 121,499,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48118,454,426 - 118,562,702 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18118,473,880 - 118,582,155 (+)NCBI
Celera8112,998,712 - 113,106,880 (+)NCBICelera
Cytogenetic Map8q32NCBI
CLASP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl333,496,245 - 33,718,356 (-)EnsemblGRCh38hg38GRCh38
GRCh38333,496,245 - 33,718,356 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37333,537,737 - 33,759,746 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36333,512,741 - 33,734,852 (-)NCBINCBI36hg18NCBI36
Build 34333,512,741 - 33,734,852NCBI
Celera333,481,199 - 33,702,919 (-)NCBI
Cytogenetic Map3p22.3NCBI
HuRef333,478,162 - 33,700,169 (-)NCBIHuRef
CHM1_1333,487,717 - 33,709,704 (-)NCBICHM1_1
Clasp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399113,567,776 - 113,748,765 (+)NCBIGRCm39mm39
GRCm39 Ensembl9113,570,541 - 113,748,750 (+)Ensembl
GRCm389113,740,077 - 113,919,697 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9113,741,473 - 113,919,682 (+)EnsemblGRCm38mm10GRCm38
MGSCv379113,650,591 - 113,828,815 (+)NCBIGRCm37mm9NCBIm37
MGSCv369113,661,284 - 113,767,152 (+)NCBImm8
Celera9113,450,233 - 113,629,162 (+)NCBICelera
Cytogenetic Map9F3NCBI
Clasp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955421767,210 - 897,457 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955421767,648 - 957,160 (-)NCBIChiLan1.0ChiLan1.0
CLASP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1333,718,761 - 33,938,773 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl333,721,153 - 33,938,560 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0333,418,300 - 33,640,185 (-)NCBIMhudiblu_PPA_v0panPan3
CLASP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1233,261,778 - 3,423,698 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl233,246,522 - 3,421,716 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha233,290,238 - 3,467,789 (+)NCBI
ROS_Cfam_1.0233,502,417 - 3,680,553 (+)NCBI
UMICH_Zoey_3.1233,341,844 - 3,518,555 (+)NCBI
UNSW_CanFamBas_1.0233,467,897 - 3,645,453 (+)NCBI
UU_Cfam_GSD_1.0233,441,174 - 3,619,026 (+)NCBI
Clasp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118190,617,726 - 190,801,913 (-)NCBI
SpeTri2.0NW_00493647323,756,291 - 23,940,966 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLASP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1319,305,180 - 19,510,585 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11319,305,430 - 19,510,589 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21320,890,430 - 21,096,396 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLASP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11577,969,587 - 78,186,843 (-)NCBI
ChlSab1.1 Ensembl1577,968,860 - 78,186,601 (-)Ensembl
Vero_WHO_p1.0NW_02366604151,352,579 - 51,569,107 (-)NCBI
Clasp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478811,441,840 - 11,657,515 (-)NCBI

Position Markers
BF397826  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28113,789,772 - 113,789,966 (+)MAPPERmRatBN7.2
Rnor_6.08122,116,540 - 122,116,733NCBIRnor6.0
Rnor_5.08121,430,070 - 121,430,263UniSTSRnor5.0
RGSC_v3.48118,493,747 - 118,493,940UniSTSRGSC3.4
Celera8113,038,026 - 113,038,219UniSTS
RH 3.4 Map81196.0UniSTS
Cytogenetic Map8q32UniSTS
BF404140  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28113,767,832 - 113,768,037 (+)MAPPERmRatBN7.2
Rnor_6.08122,094,409 - 122,094,613NCBIRnor6.0
Rnor_5.08121,407,939 - 121,408,143UniSTSRnor5.0
RGSC_v3.48118,471,807 - 118,472,011UniSTSRGSC3.4
Celera8113,016,093 - 113,016,297UniSTS
RH 3.4 Map81205.9UniSTS
Cytogenetic Map8q32UniSTS
BF390126  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28113,859,026 - 113,859,176 (+)MAPPERmRatBN7.2
Rnor_6.08122,185,791 - 122,185,940NCBIRnor6.0
Rnor_5.08121,499,321 - 121,499,470UniSTSRnor5.0
RGSC_v3.48118,562,998 - 118,563,147UniSTSRGSC3.4
Celera8113,107,176 - 113,107,325UniSTS
RH 3.4 Map81206.4UniSTS
Cytogenetic Map8q32UniSTS
BF390322  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28113,767,928 - 113,768,110 (+)MAPPERmRatBN7.2
Rnor_6.08122,094,505 - 122,094,686NCBIRnor6.0
Rnor_5.08121,408,035 - 121,408,216UniSTSRnor5.0
RGSC_v3.48118,471,903 - 118,472,084UniSTSRGSC3.4
Celera8113,016,189 - 113,016,370UniSTS
RH 3.4 Map81206.99UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
1599689Iddm24Insulin dependent diabetes mellitus QTL 244.720.001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)8112834440118649220Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:669
Count of miRNA genes:273
Interacting mature miRNAs:364
Transcripts:ENSRNOT00000012545
Prediction methods:Microtar, Miranda, 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 42 34 18 19 18 8 11 74 33 38 11 8
Low 1 1 23 23 23 2 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243901 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243905 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AJ288060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CX570719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY568613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000012545   ⟹   ENSRNOP00000012545
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,750,451 - 113,858,731 (+)Ensembl
Rnor_6.0 Ensembl8122,076,759 - 122,185,495 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091980   ⟹   ENSRNOP00000071109
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
Rnor_6.0 Ensembl8122,003,916 - 122,184,089 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100370   ⟹   ENSRNOP00000095678
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,750,451 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103269   ⟹   ENSRNOP00000085148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107377   ⟹   ENSRNOP00000083968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111105   ⟹   ENSRNOP00000076941
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,731,932 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111450   ⟹   ENSRNOP00000095411
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000112192   ⟹   ENSRNOP00000081793
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113161   ⟹   ENSRNOP00000095387
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117265   ⟹   ENSRNOP00000078073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8113,677,284 - 113,858,731 (+)Ensembl
RefSeq Acc Id: NM_053722   ⟹   NP_446174
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,451 - 113,858,731 (+)NCBI
Rnor_6.08122,076,759 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
RGSC_v3.48118,454,426 - 118,562,702 (+)RGD
Celera8112,998,712 - 113,106,880 (+)RGD
Sequence:
RefSeq Acc Id: XM_006243899   ⟹   XP_006243961
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
Rnor_6.08122,003,815 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243901   ⟹   XP_006243963
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
Rnor_6.08122,003,815 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243904   ⟹   XP_006243966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
Rnor_6.08122,003,815 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243905   ⟹   XP_006243967
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
Rnor_6.08122,003,815 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243906   ⟹   XP_006243968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,544 - 113,859,957 (+)NCBI
Rnor_6.08122,003,815 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243910   ⟹   XP_006243972
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,555 - 113,859,957 (+)NCBI
Rnor_6.08122,076,667 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243912   ⟹   XP_006243974
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,555 - 113,859,957 (+)NCBI
Rnor_6.08122,076,668 - 122,185,495 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243914   ⟹   XP_006243976
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,345 - 113,778,171 (+)NCBI
Rnor_6.08122,003,719 - 122,103,524 (+)NCBI
Rnor_5.08121,317,262 - 121,499,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595407   ⟹   XP_017450896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,555 - 113,859,957 (+)NCBI
Rnor_6.08122,076,665 - 122,185,495 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080673   ⟹   XP_038936601
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080674   ⟹   XP_038936602
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080675   ⟹   XP_038936603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080676   ⟹   XP_038936604
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080677   ⟹   XP_038936605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080678   ⟹   XP_038936606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080680   ⟹   XP_038936608
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,544 - 113,859,957 (+)NCBI
RefSeq Acc Id: XM_039080681   ⟹   XP_038936609
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080682   ⟹   XP_038936610
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080683   ⟹   XP_038936611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080684   ⟹   XP_038936612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080685   ⟹   XP_038936613
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080686   ⟹   XP_038936614
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080687   ⟹   XP_038936615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080688   ⟹   XP_038936616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080689   ⟹   XP_038936617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080690   ⟹   XP_038936618
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080691   ⟹   XP_038936619
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080692   ⟹   XP_038936620
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
RefSeq Acc Id: XM_039080693   ⟹   XP_038936621
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,383 - 113,859,957 (+)NCBI
RefSeq Acc Id: XM_039080694   ⟹   XP_038936622
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,731,414 - 113,859,957 (+)NCBI
RefSeq Acc Id: XM_039080695   ⟹   XP_038936623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,750,384 - 113,859,957 (+)NCBI
RefSeq Acc Id: XM_039080696   ⟹   XP_038936624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,366 - 113,811,596 (+)NCBI
RefSeq Acc Id: XM_039080697   ⟹   XP_038936625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,811,596 (+)NCBI
RefSeq Acc Id: XM_039080698   ⟹   XP_038936626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,366 - 113,811,596 (+)NCBI
RefSeq Acc Id: XM_039080699   ⟹   XP_038936627
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28113,677,367 - 113,859,237 (+)NCBI
Protein Sequences
Protein RefSeqs NP_446174 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243961 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243963 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243966 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243967 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243968 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243972 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243974 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243976 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450896 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936601 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936602 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936603 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936604 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936605 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936606 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936608 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936609 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936610 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936611 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936612 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936613 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936614 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936615 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936616 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936617 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936618 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936619 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936620 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936621 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936622 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936623 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936624 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936625 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936626 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936627 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAC35166 (Get FASTA)   NCBI Sequence Viewer  
  EDL77003 (Get FASTA)   NCBI Sequence Viewer  
  Q99JD4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446174   ⟸   NM_053722
- UniProtKB: Q99JD4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006243976   ⟸   XM_006243914
- Peptide Label: isoform X35
- Sequence:
RefSeq Acc Id: XP_006243961   ⟸   XM_006243899
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006243963   ⟸   XM_006243901
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006243966   ⟸   XM_006243904
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006243968   ⟸   XM_006243906
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_006243967   ⟸   XM_006243905
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_006243972   ⟸   XM_006243910
- Peptide Label: isoform X27
- Sequence:
RefSeq Acc Id: XP_006243974   ⟸   XM_006243912
- Peptide Label: isoform X29
- Sequence:
RefSeq Acc Id: XP_017450896   ⟸   XM_017595407
- Peptide Label: isoform X28
- Sequence:
RefSeq Acc Id: ENSRNOP00000012545   ⟸   ENSRNOT00000012545
RefSeq Acc Id: ENSRNOP00000071109   ⟸   ENSRNOT00000091980
RefSeq Acc Id: XP_038936624   ⟸   XM_039080696
- Peptide Label: isoform X31
RefSeq Acc Id: XP_038936626   ⟸   XM_039080698
- Peptide Label: isoform X33
RefSeq Acc Id: XP_038936601   ⟸   XM_039080673
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936602   ⟸   XM_039080674
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038936604   ⟸   XM_039080676
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038936605   ⟸   XM_039080677
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038936609   ⟸   XM_039080681
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038936612   ⟸   XM_039080684
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038936617   ⟸   XM_039080689
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038936620   ⟸   XM_039080692
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038936613   ⟸   XM_039080685
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038936611   ⟸   XM_039080683
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038936614   ⟸   XM_039080686
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038936615   ⟸   XM_039080687
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038936616   ⟸   XM_039080688
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038936603   ⟸   XM_039080675
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038936610   ⟸   XM_039080682
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038936606   ⟸   XM_039080678
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038936627   ⟸   XM_039080699
- Peptide Label: isoform X34
RefSeq Acc Id: XP_038936618   ⟸   XM_039080690
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038936619   ⟸   XM_039080691
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038936625   ⟸   XM_039080697
- Peptide Label: isoform X32
RefSeq Acc Id: XP_038936608   ⟸   XM_039080680
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038936622   ⟸   XM_039080694
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038936621   ⟸   XM_039080693
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038936623   ⟸   XM_039080695
- Peptide Label: isoform X30
RefSeq Acc Id: ENSRNOP00000081793   ⟸   ENSRNOT00000112192
RefSeq Acc Id: ENSRNOP00000095411   ⟸   ENSRNOT00000111450
RefSeq Acc Id: ENSRNOP00000076941   ⟸   ENSRNOT00000111105
RefSeq Acc Id: ENSRNOP00000083968   ⟸   ENSRNOT00000107377
RefSeq Acc Id: ENSRNOP00000095387   ⟸   ENSRNOT00000113161
RefSeq Acc Id: ENSRNOP00000078073   ⟸   ENSRNOT00000117265
RefSeq Acc Id: ENSRNOP00000095678   ⟸   ENSRNOT00000100370
RefSeq Acc Id: ENSRNOP00000085148   ⟸   ENSRNOT00000103269
Protein Domains
TOG

Transcriptome

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

Promoters
RGD ID:13696351
Promoter ID:EPDNEW_R6873
Type:single initiation site
Name:Clasp2_1
Description:cytoplasmic linker associated protein 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6874  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08122,004,001 - 122,004,061EPDNEW
RGD ID:13696349
Promoter ID:EPDNEW_R6874
Type:single initiation site
Name:Clasp2_2
Description:cytoplasmic linker associated protein 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6873  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08122,076,708 - 122,076,768EPDNEW

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)
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)
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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)
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)
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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)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
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
WKY/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
WKY/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
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)
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
WKY/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
WN/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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619789 AgrOrtholog
Ensembl Genes ENSRNOG00000009161 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000012545 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000071109 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012545 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000091980 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLASP_N_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HEAT_type_2 UniProtKB/TrEMBL
  TOG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114514 UniProtKB/Swiss-Prot
NCBI Gene 114514 ENTREZGENE
Pfam CLASP_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clasp2 PhenoGen
PROSITE HEAT_REPEAT UniProtKB/TrEMBL
SMART TOG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZM8_RAT UniProtKB/TrEMBL
  CLAP2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-29 Clasp2  cytoplasmic linker associated protein 2  Clasp2  CLIP associating protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Clasp2  CLIP-associating protein 2      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Clasp2  CLIP-associating protein 2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction bind cytoplasmic linker proteins (CLIPs) and microtubules 68300
gene_process may be impoportant for microtubule stabilization 68300