Cacna1e (calcium voltage-gated channel subunit alpha1 E) - Rat Genome Database

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Gene: Cacna1e (calcium voltage-gated channel subunit alpha1 E) Rattus norvegicus
Analyze
Symbol: Cacna1e
Name: calcium voltage-gated channel subunit alpha1 E
RGD ID: 2246
Description: Exhibits voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels. Involved in calcium ion import. Localizes to GABA-ergic synapse; perikaryon; and voltage-gated calcium channel complex. Human ortholog(s) of this gene implicated in early infantile epileptic encephalopathy. Orthologous to human CACNA1E (calcium voltage-gated channel subunit alpha1 E); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; mitogen activated protein kinase signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; 2,4,6-trinitrobenzenesulfonic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: BII; brain calcium channel II; CACHA1E; calcium channel, L type, alpha-1 polypeptide; calcium channel, L type, alpha-1 polypeptide, isoform 6; calcium channel, voltage-dependent, L type, alpha 1E subunit; calcium channel, voltage-dependent, R type, alpha 1E subunit; Cav2.3; RBE-II; RBE2; voltage gated calcium channel alpha1E subunit; voltage-dependent calcium channel alpha1-E subunit; voltage-dependent R-type calcium channel subunit alpha-1E; voltage-gated calcium channel subunit alpha Cav2.3
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
mRatBN7.21366,574,659 - 67,063,443 (-)NCBI
Rnor_6.0 Ensembl1371,906,702 - 72,367,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01371,899,445 - 72,534,992 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01376,843,146 - 77,473,206 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41369,367,254 - 69,683,943 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11369,380,942 - 69,697,975 (-)NCBI
Celera1366,463,930 - 66,771,500 (-)NCBICelera
Cytogenetic Map13q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:8071363   PMID:9582423   PMID:10377343   PMID:10801976   PMID:11102459   PMID:11263998   PMID:11854466   PMID:11923483   PMID:11959138   PMID:12074836   PMID:12151091   PMID:12827191  
PMID:14519849   PMID:14976402   PMID:15258581   PMID:15630454   PMID:17369816   PMID:17376845   PMID:17893194   PMID:19726083   PMID:20568961   PMID:22846999   PMID:23015445   PMID:23537331  
PMID:30343943  


Genomics

Comparative Map Data
Cacna1e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21366,574,659 - 67,063,443 (-)NCBI
Rnor_6.0 Ensembl1371,906,702 - 72,367,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01371,899,445 - 72,534,992 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01376,843,146 - 77,473,206 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41369,367,254 - 69,683,943 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11369,380,942 - 69,697,975 (-)NCBI
Celera1366,463,930 - 66,771,500 (-)NCBICelera
Cytogenetic Map13q21NCBI
CACNA1E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1181,317,690 - 181,808,084 (+)EnsemblGRCh38hg38GRCh38
GRCh381181,317,712 - 181,808,084 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371181,452,653 - 181,777,219 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361179,719,339 - 180,037,339 (+)NCBINCBI36hg18NCBI36
Build 341178,184,372 - 178,502,370NCBI
Celera1154,559,815 - 154,877,831 (+)NCBI
Cytogenetic Map1q25.3NCBI
HuRef1152,684,592 - 153,007,527 (+)NCBIHuRef
CHM1_11182,875,471 - 183,198,679 (+)NCBICHM1_1
Cacna1e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391154,266,552 - 154,760,374 (-)NCBIGRCm39mm39
GRCm39 Ensembl1154,266,477 - 154,760,247 (-)Ensembl
GRCm381154,390,806 - 154,884,785 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1154,390,731 - 154,884,501 (-)EnsemblGRCm38mm10GRCm38
MGSCv371156,239,649 - 156,573,050 (-)NCBIGRCm37mm9NCBIm37
MGSCv361156,158,170 - 156,488,574 (-)NCBImm8
Celera1156,824,777 - 157,160,713 (-)NCBICelera
Cytogenetic Map1G3NCBI
cM Map166.14NCBI
Cacna1e
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540620,510,954 - 20,816,678 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540620,356,564 - 20,824,679 (+)NCBIChiLan1.0ChiLan1.0
CACNA1E
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11160,627,210 - 160,957,228 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1160,628,089 - 160,949,270 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01156,796,855 - 157,296,987 (+)NCBIMhudiblu_PPA_v0panPan3
CACNA1E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1714,892,165 - 15,267,418 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl714,707,801 - 15,267,422 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha714,468,762 - 14,855,678 (+)NCBI
ROS_Cfam_1.0714,765,860 - 15,001,883 (+)NCBI
UMICH_Zoey_3.1714,528,588 - 14,909,826 (+)NCBI
UNSW_CanFamBas_1.0714,637,758 - 15,018,763 (+)NCBI
UU_Cfam_GSD_1.0714,762,516 - 15,144,544 (+)NCBI
Cacna1e
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934489,848,150 - 90,292,121 (-)NCBI
SpeTri2.0NW_0049364817,694,960 - 7,908,683 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CACNA1E
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9122,931,808 - 123,317,141 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19122,827,386 - 123,318,372 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29135,315,145 - 135,473,185 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CACNA1E
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12547,589,859 - 47,924,081 (-)NCBI
ChlSab1.1 Ensembl2547,597,808 - 47,922,969 (-)Ensembl
Vero_WHO_p1.0NW_02366605548,962,031 - 49,465,823 (-)NCBI
Cacna1e
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247711,554,875 - 2,047,597 (+)NCBI

Position Markers
D13Got45  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,706,825 - 66,707,096 (+)MAPPER
Rnor_6.01372,031,440 - 72,031,708NCBIRnor6.0
Rnor_5.01376,974,692 - 76,974,960UniSTSRnor5.0
RGSC_v3.41369,494,047 - 69,494,326RGDRGSC3.4
RGSC_v3.41369,494,047 - 69,494,315UniSTSRGSC3.4
RGSC_v3.11369,508,127 - 69,508,395RGD
Celera1366,584,506 - 66,584,761UniSTS
RH 3.4 Map13341.9RGD
RH 3.4 Map13341.9UniSTS
Cytogenetic Map13q21UniSTS
RH71332  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,606,809 - 66,606,999 (+)MAPPER
Rnor_6.01371,931,591 - 71,931,780NCBIRnor6.0
Rnor_5.01376,875,016 - 76,875,205UniSTSRnor5.0
RGSC_v3.41369,391,752 - 69,391,941UniSTSRGSC3.4
RGSC_v3.475,332,129 - 5,332,317UniSTSRGSC3.4
Celera1366,488,428 - 66,488,617UniSTS
Celera73,069,950 - 3,070,138UniSTS
Cytogenetic Map10q24UniSTS
Cytogenetic Map7q11UniSTS
Cytogenetic Map13q21UniSTS
RH142860  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,602,027 - 66,602,131 (+)MAPPER
Rnor_6.01371,926,810 - 71,926,913NCBIRnor6.0
Rnor_5.01376,870,235 - 76,870,338UniSTSRnor5.0
RGSC_v3.41369,386,971 - 69,387,074UniSTSRGSC3.4
Celera1366,483,647 - 66,483,750UniSTS
RH 3.4 Map13359.8UniSTS
Cytogenetic Map13q21UniSTS
AW530514  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,835,495 - 66,835,689 (+)MAPPER
Rnor_6.01372,309,010 - 72,309,203NCBIRnor6.0
Rnor_5.01377,247,959 - 77,248,152UniSTSRnor5.0
RGSC_v3.41369,623,579 - 69,623,772UniSTSRGSC3.4
Celera1366,712,994 - 66,713,187UniSTS
RH 3.4 Map13372.5UniSTS
Cytogenetic Map13q21UniSTS
BF409484  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,888,334 - 66,888,550 (+)MAPPER
Rnor_6.01372,361,872 - 72,362,087NCBIRnor6.0
Rnor_5.01377,300,394 - 77,300,609UniSTSRnor5.0
RGSC_v3.41369,677,828 - 69,678,043UniSTSRGSC3.4
Celera1366,765,385 - 66,765,600UniSTS
RH 3.4 Map13342.0UniSTS
Cytogenetic Map13q21UniSTS
BE119343  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,708,700 - 66,708,873 (+)MAPPER
Rnor_6.01372,033,312 - 72,033,484NCBIRnor6.0
Rnor_5.01376,976,564 - 76,976,736UniSTSRnor5.0
RGSC_v3.41369,495,919 - 69,496,091UniSTSRGSC3.4
Celera1366,586,363 - 66,586,535UniSTS
RH 3.4 Map13343.4UniSTS
Cytogenetic Map13q21UniSTS
Cacna1e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21366,894,614 - 66,894,738 (+)MAPPER
Rnor_6.01372,368,152 - 72,368,275NCBIRnor6.0
Rnor_5.01377,306,674 - 77,306,797UniSTSRnor5.0
RGSC_v3.41369,684,108 - 69,684,231UniSTSRGSC3.4
Celera1366,771,665 - 66,771,788UniSTS
Cytogenetic Map13q21UniSTS
Ptp4a1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X137,875,660 - 137,876,614 (-)MAPPER
Rnor_6.0965,085,524 - 65,086,268NCBIRnor6.0
Rnor_6.01372,154,591 - 72,155,544NCBIRnor6.0
Rnor_5.01377,096,527 - 77,097,480UniSTSRnor5.0
Rnor_5.0964,882,122 - 64,882,866UniSTSRnor5.0
RGSC_v3.4X145,027,098 - 145,028,051UniSTSRGSC3.4
RGSC_v3.4956,853,881 - 56,854,858UniSTSRGSC3.4
Celera957,179,170 - 57,180,147UniSTS
CeleraX133,964,534 - 133,965,487UniSTS
Cytogenetic Map9q21UniSTS
Cytogenetic Map13q21UniSTS
Cytogenetic Map9q31UniSTS
Cytogenetic MapXq36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132800833873008338Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132858445273584452Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132907693474076934Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132907693474076934Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133614753399968921Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133734634882346348Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133937292784372927Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133950130093652524Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)134231074486833540Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)134231074487310744Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134357571788575717Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134567662990676629Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135108098996080989Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135156924896569248Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)135157782490675199Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1357903612102903612Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1362975663107975663Rat
2303028Bp329Blood pressure QTL 329arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136361128379034003Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)136450135182995671Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)136500824591629354Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:118
Count of miRNA genes:64
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000003869, ENSRNOT00000003928
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 58 1
Low 3 2 3 2 16 27 2
Below cutoff 3 38 26 11 15 11 8 8 29 13 9 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_019294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598915 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091016 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF009419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF033580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF057029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF146634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY029412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L15453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003869   ⟹   ENSRNOP00000003869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1371,906,972 - 72,063,488 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000003928   ⟹   ENSRNOP00000003928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1371,907,171 - 72,367,980 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090544   ⟹   ENSRNOP00000069641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1371,906,702 - 72,063,347 (-)Ensembl
RefSeq Acc Id: NM_019294   ⟹   NP_062167
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,581,920 - 66,894,450 (-)NCBI
Rnor_6.01371,907,093 - 72,367,987 (-)NCBI
Rnor_5.01376,843,146 - 77,473,206 (-)NCBI
RGSC_v3.41369,367,254 - 69,683,943 (-)RGD
Celera1366,463,930 - 66,771,500 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250069   ⟹   XP_006250131
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01371,907,171 - 72,485,109 (-)NCBI
Rnor_5.01376,843,146 - 77,473,206 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598908   ⟹   XP_017454397
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,582,389 - 67,062,927 (-)NCBI
Rnor_6.01371,899,445 - 72,534,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598909   ⟹   XP_017454398
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01371,907,171 - 72,534,992 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598910   ⟹   XP_017454399
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01371,899,445 - 72,534,914 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598911   ⟹   XP_017454400
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,581,920 - 67,062,927 (-)NCBI
Rnor_6.01371,907,093 - 72,534,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598912   ⟹   XP_017454401
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01371,899,445 - 72,534,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598913   ⟹   XP_017454402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,582,073 - 67,062,925 (-)NCBI
Rnor_6.01371,906,855 - 72,534,912 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598914   ⟹   XP_017454403
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,582,389 - 67,062,926 (-)NCBI
Rnor_6.01371,907,171 - 72,534,912 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598915   ⟹   XP_017454404
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,582,389 - 67,062,927 (-)NCBI
Rnor_6.01371,907,171 - 72,534,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017598916   ⟹   XP_017454405
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01371,907,171 - 72,369,686 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091007   ⟹   XP_038946935
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,927 (-)NCBI
RefSeq Acc Id: XM_039091008   ⟹   XP_038946936
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,063,443 (-)NCBI
RefSeq Acc Id: XM_039091009   ⟹   XP_038946937
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,012,195 (-)NCBI
RefSeq Acc Id: XM_039091010   ⟹   XP_038946938
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,928 (-)NCBI
RefSeq Acc Id: XM_039091011   ⟹   XP_038946939
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,928 (-)NCBI
RefSeq Acc Id: XM_039091012   ⟹   XP_038946940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,929 (-)NCBI
RefSeq Acc Id: XM_039091013   ⟹   XP_038946941
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,927 (-)NCBI
RefSeq Acc Id: XM_039091015   ⟹   XP_038946943
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,926 (-)NCBI
RefSeq Acc Id: XM_039091016   ⟹   XP_038946944
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 67,062,926 (-)NCBI
RefSeq Acc Id: XM_039091017   ⟹   XP_038946945
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,574,659 - 66,895,611 (-)NCBI
RefSeq Acc Id: XM_039091018   ⟹   XP_038946946
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21366,598,736 - 67,062,929 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_062167   ⟸   NM_019294
- Sequence:
RefSeq Acc Id: XP_006250131   ⟸   XM_006250069
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454399   ⟸   XM_017598910
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454401   ⟸   XM_017598912
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454397   ⟸   XM_017598908
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454402   ⟸   XM_017598913
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017454400   ⟸   XM_017598911
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017454398   ⟸   XM_017598909
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454404   ⟸   XM_017598915
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_017454403   ⟸   XM_017598914
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017454405   ⟸   XM_017598916
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: ENSRNOP00000069641   ⟸   ENSRNOT00000090544
RefSeq Acc Id: ENSRNOP00000003928   ⟸   ENSRNOT00000003928
RefSeq Acc Id: ENSRNOP00000003869   ⟸   ENSRNOT00000003869
RefSeq Acc Id: XP_038946936   ⟸   XM_039091008
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946940   ⟸   XM_039091012
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038946939   ⟸   XM_039091011
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038946938   ⟸   XM_039091010
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946941   ⟸   XM_039091013
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946935   ⟸   XM_039091007
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946943   ⟸   XM_039091015
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038946944   ⟸   XM_039091016
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038946937   ⟸   XM_039091009
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946945   ⟸   XM_039091017
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038946946   ⟸   XM_039091018
- Peptide Label: isoform X14
Protein Domains
EF-hand

Transcriptome

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


Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2246 AgrOrtholog
Ensembl Genes ENSRNOG00000002863 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003869 UniProtKB/TrEMBL
  ENSRNOP00000003928 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069641 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003869 UniProtKB/TrEMBL
  ENSRNOT00000003928 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090544 UniProtKB/TrEMBL
Gene3D-CATH 1.20.120.350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPHH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_a1su_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_R_a1su UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCCAlpha1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:54234 UniProtKB/TrEMBL
NCBI Gene 54234 ENTREZGENE
PANTHER PTHR45628:SF5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Ca_chan_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPHH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cacna1e PhenoGen
PRINTS CACHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RVDCCALPHA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Ca_chan_IQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JVW2_RAT UniProtKB/TrEMBL
  CAC1E_RAT UniProtKB/Swiss-Prot
  F1LMS1_RAT UniProtKB/TrEMBL
  F1LNB9_RAT UniProtKB/TrEMBL
  Q07652 ENTREZGENE
  Q923K6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Cacna1e  calcium voltage-gated channel subunit alpha1 E  Cacna1e  calcium channel, voltage-dependent, R type, alpha 1E subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Cacna1e  calcium channel, voltage-dependent, R type, alpha 1E subunit  Cacna1e  calcium channel, voltage-dependent, L type, alpha 1E subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Cacna1e  calcium channel, voltage-dependent, L type, alpha 1E subunit      Symbol and Name status set to approved 1299863 APPROVED
2002-06-10 Cacna1e  calcium channel, voltage-dependent, L type, alpha 1E subunit      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in brain and atrial myocytes 69790
gene_function low voltage-activated calcium channel, T-type 69790
gene_process may be an important regulator of neuronal and muscle excitability, secretion, and possibly cell growth and differentiation 69790