Vdac3 (voltage-dependent anion channel 3) - Rat Genome Database

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Gene: Vdac3 (voltage-dependent anion channel 3) Rattus norvegicus
Analyze
Symbol: Vdac3
Name: voltage-dependent anion channel 3
RGD ID: 621577
Description: Predicted to have voltage-gated anion channel activity. Predicted to be involved in behavioral fear response; learning; and neuron-neuron synaptic transmission. Localizes to mitochondrion; rough endoplasmic reticulum; and synaptic vesicle. Orthologous to human VDAC3 (voltage dependent anion channel 3); PARTICIPATES IN calcium/calcium-mediated signaling pathway; Huntington's disease pathway; Parkinson's disease pathway; INTERACTS WITH aconitine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: mitochondrial voltage dependent anion channel 3; outer mitochondrial membrane protein porin 3; rVDAC3; VDAC-3; voltage-dependent anion-selective channel protein 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
mRatBN7.21669,434,982 - 69,451,473 (+)NCBI
Rnor_6.0 Ensembl1674,292,438 - 74,308,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01674,292,466 - 74,308,910 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01673,924,404 - 73,940,565 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41673,922,950 - 73,939,402 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11673,923,214 - 73,939,665 (+)NCBI
Celera1667,328,312 - 67,344,563 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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:9714728   PMID:11907043   PMID:12865426   PMID:14651853   PMID:18504258   PMID:18614015   PMID:19056867   PMID:20833797   PMID:21630459   PMID:22871113   PMID:23028046   PMID:23376485  
PMID:24625528   PMID:26316108   PMID:29476059  


Genomics

Comparative Map Data
Vdac3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21669,434,982 - 69,451,473 (+)NCBI
Rnor_6.0 Ensembl1674,292,438 - 74,308,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01674,292,466 - 74,308,910 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01673,924,404 - 73,940,565 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41673,922,950 - 73,939,402 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11673,923,214 - 73,939,665 (+)NCBI
Celera1667,328,312 - 67,344,563 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
VDAC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl842,391,624 - 42,405,937 (+)EnsemblGRCh38hg38GRCh38
GRCh38842,391,624 - 42,405,937 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37842,249,279 - 42,263,455 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36842,368,547 - 42,382,572 (+)NCBINCBI36hg18NCBI36
Build 34842,368,546 - 42,382,570NCBI
Celera841,194,068 - 41,208,137 (+)NCBI
Cytogenetic Map8p11.21NCBI
HuRef840,772,505 - 40,786,681 (+)NCBIHuRef
CHM1_1842,296,186 - 42,310,362 (+)NCBICHM1_1
Vdac3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39823,067,091 - 23,083,829 (-)NCBIGRCm39mm39
GRCm39 Ensembl823,067,091 - 23,083,829 (-)Ensembl
GRCm38822,577,075 - 22,593,813 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl822,577,075 - 22,593,813 (-)EnsemblGRCm38mm10GRCm38
MGSCv37823,687,573 - 23,704,230 (-)NCBIGRCm37mm9NCBIm37
MGSCv36824,042,646 - 24,059,303 (-)NCBImm8
Celera824,067,622 - 24,083,995 (-)NCBICelera
Cytogenetic Map8A2NCBI
cM Map811.42NCBI
Vdac3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955536505,901 - 520,399 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955536507,393 - 520,399 (-)NCBIChiLan1.0ChiLan1.0
VDAC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1839,082,698 - 39,097,442 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl839,082,698 - 39,097,437 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0841,638,522 - 41,652,637 (+)NCBIMhudiblu_PPA_v0panPan3
VDAC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11623,276,763 - 23,289,752 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1623,276,767 - 23,289,752 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1623,781,395 - 23,794,383 (-)NCBI
ROS_Cfam_1.01625,025,439 - 25,038,433 (-)NCBI
UMICH_Zoey_3.11623,396,625 - 23,409,605 (-)NCBI
UNSW_CanFamBas_1.01623,959,525 - 23,972,507 (-)NCBI
UU_Cfam_GSD_1.01624,010,292 - 24,023,302 (-)NCBI
Vdac3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494346,338,494 - 46,351,687 (-)NCBI
SpeTri2.0NW_004936785294,890 - 308,245 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VDAC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1711,410,392 - 11,425,388 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11711,410,313 - 11,425,395 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21713,028,544 - 13,050,347 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VDAC3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1840,388,485 - 40,402,637 (+)NCBI
ChlSab1.1 Ensembl840,388,423 - 40,403,598 (+)Ensembl
Vdac3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624780857,985 - 870,009 (-)NCBI

Position Markers
RH127358  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21669,451,233 - 69,451,440 (+)MAPPER
Rnor_6.01674,308,671 - 74,308,877NCBIRnor6.0
Rnor_5.01673,940,326 - 73,940,532UniSTSRnor5.0
RGSC_v3.41673,939,163 - 73,939,369UniSTSRGSC3.4
Celera1667,344,324 - 67,344,530UniSTS
RH 3.4 Map16635.1UniSTS
Cytogenetic Map16q12.5UniSTS
VDAC3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21669,444,621 - 69,446,245 (+)MAPPER
Rnor_6.01674,302,059 - 74,303,682NCBIRnor6.0
Rnor_5.01673,933,714 - 73,935,337UniSTSRnor5.0
RGSC_v3.41673,932,550 - 73,934,174UniSTSRGSC3.4
Celera1667,337,905 - 67,339,527UniSTS
Cytogenetic Map16q12.5UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)162075555680316424Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163900002184000021Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164151271086512710Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164151271086512710Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164655818890668790Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165781635790668790Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165781635790668790Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165781635790668790Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165928577589248943Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)167321963880115794Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:188
Count of miRNA genes:78
Interacting mature miRNAs:81
Transcripts:ENSRNOT00000026197, ENSRNOT00000047440
Prediction methods:Microtar, Miranda, Rnahybrid
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

Nucleotide Sequences
RefSeq Transcripts NM_031355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB039664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF048829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF048830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF268469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473970 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000026197   ⟹   ENSRNOP00000026197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1674,292,438 - 74,308,903 (+)Ensembl
RefSeq Acc Id: NM_031355   ⟹   NP_112645
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21669,435,029 - 69,451,473 (+)NCBI
Rnor_6.01674,292,466 - 74,308,910 (+)NCBI
Rnor_5.01673,924,404 - 73,940,565 (+)NCBI
RGSC_v3.41673,922,950 - 73,939,402 (+)RGD
Celera1667,328,312 - 67,344,563 (+)RGD
Sequence:
RefSeq Acc Id: XM_006253358   ⟹   XP_006253420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21669,434,982 - 69,451,473 (+)NCBI
Rnor_6.01674,292,466 - 74,308,910 (+)NCBI
Rnor_5.01673,924,404 - 73,940,565 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_112645   ⟸   NM_031355
- Sequence:
RefSeq Acc Id: XP_006253420   ⟸   XM_006253358
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000026197   ⟸   ENSRNOT00000026197

Transcriptome

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

Promoters
RGD ID:13700186
Promoter ID:EPDNEW_R10710
Type:initiation region
Name:Vdac3_1
Description:voltage-dependent anion channel 3
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_6.01674,292,500 - 74,292,560EPDNEW

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)
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
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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:621577 AgrOrtholog
Ensembl Genes ENSRNOG00000019277 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026197 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026197 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.40.160.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5623339 IMAGE-MGC_LOAD
InterPro Porin_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Porin_Euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Porin_Euk/Tom40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDAC3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83532 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72403 IMAGE-MGC_LOAD
NCBI Gene 83532 ENTREZGENE
PANTHER PTHR11743 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11743:SF28 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Porin_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vdac3 PhenoGen
PRINTS EUKARYTPORIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE EUKARYOTIC_PORIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSR0_RAT UniProtKB/TrEMBL
  Q9R1Z0 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6GSZ1 UniProtKB/Swiss-Prot
  Q9ESR2 UniProtKB/Swiss-Prot
  Q9JI31 UniProtKB/Swiss-Prot
  Q9WTU2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Vdac3  voltage-dependent anion channel 3    mitochondrial voltage dependent anion channel 3  Name updated 1299863 APPROVED
2002-08-07 Vdac3  mitochondrial voltage dependent anion channel 3      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in liver and malignant tumor cell line AH130 634414