Cobll1 (cordon-bleu WH2 repeat protein-like 1) - Rat Genome Database

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Gene: Cobll1 (cordon-bleu WH2 repeat protein-like 1) Rattus norvegicus
Analyze
Symbol: Cobll1
Name: cordon-bleu WH2 repeat protein-like 1
RGD ID: 1308954
Description: Predicted to have actin monomer binding activity. Orthologous to human COBLL1 (cordon-bleu WH2 repeat protein like 1); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: MODEL
Also known as: Cobl-like 1; cordon-bleu protein-like 1; LOC311088
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2349,753,260 - 49,915,168 (-)NCBI
Rnor_6.0 Ensembl351,137,076 - 51,297,852 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0351,137,104 - 51,298,956 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0357,773,838 - 57,935,923 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4347,024,613 - 47,035,010 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1346,921,142 - 47,082,351 (-)NCBI
Celera349,357,547 - 49,518,074 (-)NCBICelera
Cytogenetic Map3q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
epilepsy  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:19056867   PMID:21873635   PMID:25468996  


Genomics

Comparative Map Data
Cobll1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2349,753,260 - 49,915,168 (-)NCBI
Rnor_6.0 Ensembl351,137,076 - 51,297,852 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0351,137,104 - 51,298,956 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0357,773,838 - 57,935,923 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4347,024,613 - 47,035,010 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1346,921,142 - 47,082,351 (-)NCBI
Celera349,357,547 - 49,518,074 (-)NCBICelera
Cytogenetic Map3q21NCBI
COBLL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2164,653,624 - 164,843,679 (-)EnsemblGRCh38hg38GRCh38
GRCh382164,657,931 - 164,842,076 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372165,514,441 - 165,698,586 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362165,249,502 - 165,406,174 (-)NCBINCBI36hg18NCBI36
Build 342165,366,845 - 165,407,024NCBI
Celera2159,151,901 - 159,308,589 (-)NCBI
Cytogenetic Map2q24.3NCBI
HuRef2157,419,183 - 157,581,188 (-)NCBIHuRef
CHM1_12165,542,608 - 165,704,546 (-)NCBICHM1_1
Cobll1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39264,918,683 - 65,069,742 (-)NCBIGRCm39mm39
GRCm39 Ensembl264,918,683 - 65,069,747 (-)Ensembl
GRCm38265,088,339 - 65,239,398 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl265,088,339 - 65,239,403 (-)EnsemblGRCm38mm10GRCm38
MGSCv37264,926,396 - 65,076,683 (-)NCBIGRCm37mm9NCBIm37
MGSCv36264,890,151 - 65,039,465 (-)NCBImm8
Celera266,759,063 - 66,910,162 (-)NCBICelera
Cytogenetic Map2C1.3NCBI
Cobll1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554499,340,716 - 9,404,308 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554499,340,716 - 9,400,049 (+)NCBIChiLan1.0ChiLan1.0
COBLL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B169,316,283 - 169,477,690 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B169,322,029 - 169,477,690 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B51,932,252 - 52,117,506 (-)NCBIMhudiblu_PPA_v0panPan3
COBLL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1369,885,781 - 10,045,104 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl369,886,820 - 10,083,395 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3610,030,096 - 10,075,683 (-)NCBI
ROS_Cfam_1.03610,017,993 - 10,177,125 (-)NCBI
UMICH_Zoey_3.13610,028,871 - 10,187,392 (-)NCBI
UNSW_CanFamBas_1.03610,071,301 - 10,230,170 (-)NCBI
UU_Cfam_GSD_1.03610,185,057 - 10,343,954 (-)NCBI
Cobll1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303127,042,607 - 127,194,114 (-)NCBI
SpeTri2.0NW_00493646914,424,538 - 14,575,228 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COBLL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1571,343,750 - 71,498,401 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11571,343,749 - 71,498,495 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21579,411,838 - 79,435,063 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COBLL1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11050,146,038 - 50,312,870 (-)NCBI
ChlSab1.1 Ensembl1050,143,971 - 50,311,767 (-)Ensembl
Cobll1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624732571,448 - 734,814 (+)NCBI

Position Markers
RH133635  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2349,753,292 - 49,753,472 (+)MAPPER
Rnor_6.0351,137,137 - 51,137,316NCBIRnor6.0
Rnor_5.0357,773,871 - 57,774,050UniSTSRnor5.0
RGSC_v3.4347,023,687 - 47,023,866UniSTSRGSC3.4
Celera349,357,580 - 49,357,759UniSTS
RH 3.4 Map3625.8UniSTS
Cytogenetic Map3q21UniSTS
RH135282  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2349,820,366 - 49,820,570 (+)MAPPER
Rnor_6.0351,204,104 - 51,204,307NCBIRnor6.0
Rnor_5.0357,840,838 - 57,841,041UniSTSRnor5.0
RGSC_v3.4347,090,754 - 47,090,957UniSTSRGSC3.4
Celera349,424,664 - 49,424,867UniSTS
RH 3.4 Map3608.31UniSTS
Cytogenetic Map3q21UniSTS
AW529800  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2349,913,011 - 49,913,173 (+)MAPPER
Rnor_6.0351,296,572 - 51,296,733NCBIRnor6.0
Rnor_5.0357,933,305 - 57,933,466UniSTSRnor5.0
RGSC_v3.4347,184,678 - 47,184,839UniSTSRGSC3.4
Celera349,516,939 - 49,517,100UniSTS
RH 3.4 Map3626.4UniSTS
Cytogenetic Map3q21UniSTS
AU048427  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2349,811,906 - 49,812,170 (+)MAPPER
mRatBN7.2349,812,000 - 49,812,170 (+)MAPPER
Rnor_6.0351,195,604 - 51,195,907NCBIRnor6.0
Rnor_6.0351,195,738 - 51,195,907NCBIRnor6.0
Rnor_5.0357,832,472 - 57,832,641UniSTSRnor5.0
Rnor_5.0357,832,338 - 57,832,641UniSTSRnor5.0
RGSC_v3.4347,082,388 - 47,082,557UniSTSRGSC3.4
Celera349,416,298 - 49,416,467UniSTS
Cytogenetic Map3q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)3600074851687917Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)3600074851687917Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31009408193415837Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31011931879772001Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31802366463023664Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32122380366223803Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32122380366223803Rat
631685Bp118Blood pressure QTL 1183.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)32465522569655225Rat
2313049Bss72Bone structure and strength QTL 722.60.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)32813672851687917Rat
2313076Bss74Bone structure and strength QTL 7420.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)32813672851687917Rat
2313079Bss73Bone structure and strength QTL 731.5tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)32813672851687917Rat
2313093Bmd77Bone mineral density QTL 772.20.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)32813672851687917Rat
2313101Bmd76Bone mineral density QTL 763.60.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)32813672851687917Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32932171474321714Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32968273274682732Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32968273274682732Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32968273274682732Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32968273274682732Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32968273274682732Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32990825574908255Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32990825574908255Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)330114912123700444Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33110358972989078Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33110358972989078Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33110358972989078Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33110358972989078Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33110358972989078Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33110358972989078Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33213099777130997Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33213099777130997Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33347735462922975Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33347735481136227Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333477354108914061Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)334394121103141944Rat
10450813Scl74Serum cholesterol level QTL 745.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)33924839152182792Rat
10450852Stl33Serum triglyceride level QTL 333.40.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)33924839152182792Rat
10450816Scl75Serum cholesterol level QTL 754.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)33924839152182792Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)339248391140271184Rat
4889975Bmd81Bone mineral density QTL 814.3tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)33977324751687917Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)34042292185422921Rat
634317Bw117Body weight QTL 1173.58abdominal fat pad mass (VT:1000711)abdominal fat pad weight to body weight ratio (CMO:0000095)34052359354745780Rat
2302276Bw82Body weight QTL 824.32body mass (VT:0001259)body weight (CMO:0000012)34052359364880586Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)34052359392654473Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)34052359392654473Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)343295930108914061Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)343295930163640485Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)343295930163640485Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34540605894467785Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)345406058127023997Rat
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)345406058177699992Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)348561928155263151Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)348562146115249962Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:326
Count of miRNA genes:110
Interacting mature miRNAs:138
Transcripts:ENSRNOT00000001607, ENSRNOT00000067056
Prediction methods: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 1 7 10 2 2 4 29 14 11
Low 2 36 47 39 19 39 8 10 70 6 27 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006234304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775427 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC168937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000001607   ⟹   ENSRNOP00000001607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl351,137,076 - 51,297,852 (-)Ensembl
RefSeq Acc Id: XM_006234304   ⟹   XP_006234366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,915,165 (-)NCBI
Rnor_6.0351,137,104 - 51,298,956 (-)NCBI
Rnor_5.0357,773,838 - 57,935,923 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761935   ⟹   XP_008760157
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,297,779 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761939   ⟹   XP_008760161
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,297,778 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761940   ⟹   XP_008760162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,297,778 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008761943   ⟹   XP_008760165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,298,956 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775425   ⟹   XP_008773647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775427   ⟹   XP_008773649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775428   ⟹   XP_008773650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775429   ⟹   XP_008773651
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008775431   ⟹   XP_008773653
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,357,547 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592155   ⟹   XP_017447644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,297,779 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592156   ⟹   XP_017447645
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,137,104 - 51,297,778 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592157   ⟹   XP_017447646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,298,956 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592158   ⟹   XP_017447647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,298,956 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592159   ⟹   XP_017447648
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,144,851 - 51,235,621 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592160   ⟹   XP_017447649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,137,104 - 51,298,956 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602411   ⟹   XP_017457900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602415   ⟹   XP_017457904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,357,547 - 49,518,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602426   ⟹   XP_017457915
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera349,365,294 - 49,456,181 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039106329   ⟹   XP_038962257
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,915,168 (-)NCBI
RefSeq Acc Id: XM_039106330   ⟹   XP_038962258
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,915,168 (-)NCBI
RefSeq Acc Id: XM_039106331   ⟹   XP_038962259
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,914,722 (-)NCBI
RefSeq Acc Id: XM_039106332   ⟹   XP_038962260
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,915,166 (-)NCBI
RefSeq Acc Id: XM_039106333   ⟹   XP_038962261
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,915,167 (-)NCBI
RefSeq Acc Id: XM_039106335   ⟹   XP_038962263
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,914,721 (-)NCBI
RefSeq Acc Id: XM_039106336   ⟹   XP_038962264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,838,927 (-)NCBI
RefSeq Acc Id: XM_039106337   ⟹   XP_038962265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2349,753,260 - 49,913,216 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_006234366   ⟸   XM_006234304
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008773653   ⟸   XM_008775431
- Peptide Label: isoform X13
- Sequence:
RefSeq Acc Id: XP_008773651   ⟸   XM_008775429
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_008773650   ⟸   XM_008775428
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008773647   ⟸   XM_008775425
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008773649   ⟸   XM_008775427
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008760165   ⟸   XM_008761943
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_008760162   ⟸   XM_008761940
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008760157   ⟸   XM_008761935
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760161   ⟸   XM_008761939
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017457904   ⟸   XM_017602415
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017457900   ⟸   XM_017602411
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017457915   ⟸   XM_017602426
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017447649   ⟸   XM_017592160
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017447645   ⟸   XM_017592156
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017447647   ⟸   XM_017592158
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017447646   ⟸   XM_017592157
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017447644   ⟸   XM_017592155
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017447648   ⟸   XM_017592159
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: ENSRNOP00000001607   ⟸   ENSRNOT00000001607
RefSeq Acc Id: XP_038962258   ⟸   XM_039106330
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038962257   ⟸   XM_039106329
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038962261   ⟸   XM_039106333
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962260   ⟸   XM_039106332
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038962259   ⟸   XM_039106331
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038962263   ⟸   XM_039106335
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038962265   ⟸   XM_039106337
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038962264   ⟸   XM_039106336
- Peptide Label: isoform X7
Protein Domains
Cobl

Transcriptome

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

Promoters
RGD ID:13692105
Promoter ID:EPDNEW_R2628
Type:multiple initiation site
Name:Cobll1_1
Description:cordon-bleu WH2 repeat protein-like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0351,297,922 - 51,297,982EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 57785092 57785093 G A snv WKY/NCrl (KNAW), FHL/EurMcwi (KNAW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), FHH/EurMcwi (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NHsd (KNAW), BBDP/WorN (KNAW)
3 57786373 57786374 G C snv DOB/Oda (KyushuU)
3 57786393 57786394 C T snv BBDP/WorN (KNAW), WKY/Gcrc (KNAW), FHH/EurMcwi (KNAW), WKY/NHsd (KNAW), FHH/EurMcwi (MCW), FHL/EurMcwi (KNAW), WKY/NCrl (KNAW), FHL/EurMcwi (MCW), WKY/N (KNAW)
3 57795294 57795295 G T snv SHRSP/Gcrc (KNAW), SHR/OlaIpcvPrin (KNAW), SHR/OlaIpcv (KNAW), SHR/NHsd (KNAW), SHR/NCrlPrin (KNAW), SBN/Ygl (KNAW), ACI/EurMcwi (KNAW), ACI/N (KNAW), SS/JrHsdMcwi (KNAW), SS/Jr (KNAW), SR/JrHsd (KNAW), LN/MavRrrc (KNAW), LL/MavRrrc (KNAW), LH/MavRrrc (KNAW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), KFRS3B/Kyo (KyushuU), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), LEC/Tj (KyushuU), LE/Stm (KyushuU), SDLEF7/Barth (UDEL), M520/N (KNAW), LE/Stm (SOLiD) (KNAW), LE/Stm (Illumina) (KNAW), DA/BklArbNsi (KNAW)
3 57796535 57796536 A G snv FHL/EurMcwi (MCW), FHL/EurMcwi (KNAW), BBDP/WorN (KNAW), FHH/EurMcwi (KNAW), WKY/NHsd (KNAW), WKY/N (KNAW), FHH/EurMcwi (MCW), WKY/NCrl (KNAW), WKY/Gcrc (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 51148358 51148359 G A snv CDS, WKY/N (MCW), WKY/Gcrc (RGD), BBDP/Wor (RGD), FHH/EurMcwi (MCW), FHH/EurMcwi (RGD), WKY/NHsd (RGD), FHL/EurMcwi (MCW)
3 51149659 51149660 C T snv FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), BBDP/Wor (RGD), WKY/NHsd (RGD), WKY/Gcrc (RGD), WKY/NCrl (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), WKY/N (MCW), CDS
3 51149860 51149861 C T snv GK/Ox (RGD), CDR, MR/N (MCW)
3 51158560 51158561 G T snv SS/JrHsdMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), ACI/N (MCW), M520/N (MCW), SS/JrHsdMcwi (RGD), SS/Jr (RGD), SR/JrHsd (RGD), SHRSP/Gcrc (RGD), SHR/NHsd (RGD), SBN/Ygl (RGD), ACI/EurMcwi (RGD), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW), LE/Stm (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD)
3 51159801 51159802 A G snv WKY/NCrl (RGD), WKY/NHsd (RGD), WKY/Gcrc (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), FHH/EurMcwi (MCW), BBDP/Wor (RGD), FHL/EurMcwi (MCW), CDS, WKY/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308954 AgrOrtholog
Ensembl Genes ENSRNOG00000027016 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001607 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001607 UniProtKB/TrEMBL
InterPro COBL-like UniProtKB/TrEMBL
  Cordon-bleu_domain UniProtKB/TrEMBL
NCBI Gene 311088 ENTREZGENE
PANTHER PTHR21557 UniProtKB/TrEMBL
Pfam Cobl UniProtKB/TrEMBL
PhenoGen Cobll1 PhenoGen
UniProt B5DF59_RAT UniProtKB/TrEMBL
  F1M124_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-18 Cobll1  cordon-bleu WH2 repeat protein-like 1  Cobll1  Cobl-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cobll1  Cobl-like 1   Cobll1_predicted  Cobl-like 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cobll1_predicted  Cobl-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED