Vdac2 (voltage-dependent anion channel 2) - Rat Genome Database

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Gene: Vdac2 (voltage-dependent anion channel 2) Rattus norvegicus
Analyze
Symbol: Vdac2
Name: voltage-dependent anion channel 2
RGD ID: 621576
Description: Predicted to have several functions, including cholesterol binding activity; phosphatidylcholine binding activity; and voltage-gated anion channel activity. Predicted to be involved in several processes, including binding activity of sperm to zona pellucida; mitochondrial outer membrane permeabilization; and negative regulation of intrinsic apoptotic signaling pathway. Localizes to mitochondrion and synaptic vesicle. Used to study myocardial infarction and visual epilepsy. Biomarker of temporal lobe epilepsy. Orthologous to human VDAC2 (voltage dependent anion channel 2); PARTICIPATES IN calcium/calcium-mediated signaling pathway; Huntington's disease pathway; Parkinson's disease pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 2,2,2-tetramine; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: B36-VDAC; outer mitochondrial membrane protein porin 2; VDAC-2; voltage-dependent anion-selective channel protein 2
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
mRatBN7.2152,462,877 - 2,476,802 (-)NCBI
Rnor_6.0 Ensembl152,634,624 - 2,648,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0152,634,622 - 2,648,548 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0152,615,635 - 2,629,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4152,515,297 - 2,528,969 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1152,515,298 - 2,528,969 (-)NCBI
Celera152,105,517 - 2,119,199 (+)NCBICelera
Cytogenetic Map15p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diisothiocyano-trans-stilbene-2,2'-disulfonic acid  (ISO)
4-hydroxynon-2-enal  (ISO)
aconitine  (EXP)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
clobetasol  (ISO)
copper(II) chloride  (ISO)
cyclosporin A  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
disodium selenite  (ISO)
dopamine  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ferric ammonium citrate  (ISO)
flutamide  (EXP)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
indometacin  (ISO)
josamycin  (ISO)
ketamine  (EXP)
methamphetamine  (EXP)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (EXP)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosomorpholine  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
phenobarbital  (EXP,ISO)
potassium chromate  (ISO)
quercetin  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP,ISO)
streptozocin  (EXP)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP)
tolcapone  (EXP)
uranium atom  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
zinc sulfate  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1373732   PMID:8420959   PMID:12865426   PMID:12881569   PMID:14651853   PMID:15489334   PMID:17634366   PMID:18063578   PMID:18504258   PMID:18614015   PMID:18802025   PMID:19688190  
PMID:20833797   PMID:21605504   PMID:21630459   PMID:22082260   PMID:22867515   PMID:23106098   PMID:23355646   PMID:23376485   PMID:24625528   PMID:25204797   PMID:26316108   PMID:29476059  
PMID:30624982  


Genomics

Comparative Map Data
Vdac2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2152,462,877 - 2,476,802 (-)NCBI
Rnor_6.0 Ensembl152,634,624 - 2,648,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0152,634,622 - 2,648,548 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0152,615,635 - 2,629,561 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4152,515,297 - 2,528,969 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1152,515,298 - 2,528,969 (-)NCBI
Celera152,105,517 - 2,119,199 (+)NCBICelera
Cytogenetic Map15p16NCBI
VDAC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1075,210,154 - 75,231,448 (+)EnsemblGRCh38hg38GRCh38
GRCh381075,210,170 - 75,231,448 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371076,969,928 - 76,991,206 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361076,640,569 - 76,661,212 (+)NCBINCBI36hg18NCBI36
Build 341076,640,568 - 76,661,210NCBI
Celera1070,258,168 - 70,279,465 (+)NCBI
Cytogenetic Map10q22.2NCBI
HuRef1070,968,331 - 70,989,598 (+)NCBIHuRef
CHM1_11077,251,734 - 77,273,028 (+)NCBICHM1_1
Vdac2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391421,881,629 - 21,895,947 (+)NCBIGRCm39mm39
GRCm39 Ensembl1421,875,306 - 21,895,947 (+)Ensembl
GRCm381421,831,561 - 21,845,879 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1421,825,238 - 21,845,879 (+)EnsemblGRCm38mm10GRCm38
MGSCv371422,650,783 - 22,665,101 (+)NCBIGRCm37mm9NCBIm37
MGSCv361420,620,113 - 20,634,431 (+)NCBImm8
Celera1418,214,291 - 18,228,576 (+)NCBICelera
Cytogenetic Map14A3NCBI
cM Map1411.91NCBI
Vdac2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543716,853,433 - 16,872,345 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543716,857,715 - 16,871,717 (-)NCBIChiLan1.0ChiLan1.0
VDAC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11074,403,221 - 74,411,762 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01071,739,395 - 71,763,835 (+)NCBIMhudiblu_PPA_v0panPan3
VDAC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1425,449,926 - 25,462,147 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl425,449,442 - 25,462,335 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha425,585,079 - 25,597,491 (+)NCBI
ROS_Cfam_1.0425,732,572 - 25,744,990 (+)NCBI
UMICH_Zoey_3.1425,627,631 - 25,640,037 (+)NCBI
UNSW_CanFamBas_1.0425,828,227 - 25,840,628 (+)NCBI
UU_Cfam_GSD_1.0426,184,477 - 26,196,904 (+)NCBI
Vdac2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721355,629,722 - 55,643,567 (-)NCBI
SpeTri2.0NW_0049365214,122,447 - 4,136,228 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VDAC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1477,766,686 - 77,782,322 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11477,767,165 - 77,782,327 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
VDAC2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1956,141,153 - 56,160,378 (-)NCBI
ChlSab1.1 Ensembl956,136,756 - 56,157,173 (-)Ensembl
Vero_WHO_p1.0NW_02366604816,628,451 - 16,649,525 (-)NCBI
Vdac2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247548,587,698 - 8,601,757 (+)NCBI

Position Markers
RH135028  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2152,462,675 - 2,462,856 (+)MAPPER
Rnor_6.0152,634,421 - 2,634,601NCBIRnor6.0
Rnor_5.0152,615,434 - 2,615,614UniSTSRnor5.0
RGSC_v3.4152,515,096 - 2,515,276UniSTSRGSC3.4
Celera152,119,220 - 2,119,400UniSTS
RH 3.4 Map1544.6UniSTS
Cytogenetic Map15p16UniSTS
AA900297  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2152,463,295 - 2,463,434 (+)MAPPER
Rnor_6.0152,635,041 - 2,635,179NCBIRnor6.0
Rnor_5.0152,616,054 - 2,616,192UniSTSRnor5.0
RGSC_v3.4152,515,716 - 2,515,854UniSTSRGSC3.4
Celera152,118,642 - 2,118,780UniSTS
RH 3.4 Map1546.3UniSTS
Cytogenetic Map15p16UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15232787726288802Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15232787726288802Rat
1300142Bp191Blood pressure QTL 1913.14arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)15112800829Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15110589015828368Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:73
Interacting mature miRNAs:86
Transcripts:ENSRNOT00000018462
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018462   ⟹   ENSRNOP00000018462
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl152,634,624 - 2,648,294 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086864   ⟹   ENSRNOP00000074839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl152,634,800 - 2,648,551 (-)Ensembl
RefSeq Acc Id: NM_031354   ⟹   NP_112644
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,462,877 - 2,476,548 (-)NCBI
Rnor_6.0152,634,622 - 2,648,294 (-)NCBI
Rnor_5.0152,615,635 - 2,629,561 (-)NCBI
RGSC_v3.4152,515,297 - 2,528,969 (-)RGD
Celera152,105,517 - 2,119,199 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251661   ⟹   XP_006251723
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2152,463,052 - 2,476,802 (-)NCBI
Rnor_6.0152,634,801 - 2,648,548 (-)NCBI
Rnor_5.0152,615,635 - 2,629,561 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_112644 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251723 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF80116 (Get FASTA)   NCBI Sequence Viewer  
  AAH63164 (Get FASTA)   NCBI Sequence Viewer  
  BAB13474 (Get FASTA)   NCBI Sequence Viewer  
  P81155 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_112644   ⟸   NM_031354
- UniProtKB: P81155 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251723   ⟸   XM_006251661
- Peptide Label: isoform X1
- UniProtKB: P81155 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018462   ⟸   ENSRNOT00000018462
RefSeq Acc Id: ENSRNOP00000074839   ⟸   ENSRNOT00000086864

Transcriptome

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

Promoters
RGD ID:13699546
Promoter ID:EPDNEW_R10070
Type:initiation region
Name:Vdac2_1
Description:voltage-dependent anion channel 2
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_6.0152,648,259 - 2,648,319EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621576 AgrOrtholog
Ensembl Genes ENSRNOG00000013505 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000018462 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074839 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018462 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086864 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.160.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6921675 IMAGE-MGC_LOAD
InterPro Porin_dom_sf UniProtKB/Swiss-Prot
  Porin_Euk UniProtKB/Swiss-Prot
  Porin_Euk/Tom40 UniProtKB/Swiss-Prot
  VDAC2 UniProtKB/Swiss-Prot
KEGG Report rno:83531 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72774 IMAGE-MGC_LOAD
NCBI Gene 83531 ENTREZGENE
PANTHER PTHR11743 UniProtKB/Swiss-Prot
  PTHR11743:SF12 UniProtKB/Swiss-Prot
Pfam Porin_3 UniProtKB/Swiss-Prot
PhenoGen Vdac2 PhenoGen
PRINTS EUKARYTPORIN UniProtKB/Swiss-Prot
PROSITE EUKARYOTIC_PORIN UniProtKB/Swiss-Prot
UniProt P81155 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9JI32 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Vdac2  voltage-dependent anion channel 2      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Vdac2  voltage-dependent anion channel 2      Symbol and Name status set to provisional 70820 PROVISIONAL