Vapa (VAMP associated protein A) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Vapa (VAMP associated protein A) Rattus norvegicus
Analyze
Symbol: Vapa
Name: VAMP associated protein A
RGD ID: 61803
Description: Enables identical protein binding activity. Involved in cell death and neuron projection development. Located in endoplasmic reticulum membrane and nuclear membrane. Orthologous to human VAPA (VAMP associated protein A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 33 kDa Vamp-associated protein; VAMP (vesicle-associated membrane protein)-associated protein A; VAMP-A; VAMP-associated protein A; VAP-33; VAP-A; vesicle-associated membrane protein associated protein A (33 kDa); vesicle-associated membrane protein, associated protein a; vesicle-associated membrane protein, associated protein A (33 kDa); vesicle-associated membrane protein-associated protein A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29105,177,904 - 105,208,400 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl9105,177,907 - 105,207,847 (-)Ensembl
Rnor_6.09113,300,831 - 113,331,872 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9113,300,832 - 113,331,319 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09112,833,701 - 112,864,112 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49104,339,039 - 104,368,908 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.19104,548,519 - 104,578,388 (-)NCBI
Celera9102,564,697 - 102,594,412 (-)NCBICelera
Cytogenetic Map9q37NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Structural basis of FFAT motif-mediated ER targeting. Kaiser SE, etal., Structure. 2005 Jul;13(7):1035-45.
4. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. Molecular cloning and characterization of mammalian homologues of vesicle-associated membrane protein-associated (VAMP-associated) proteins. Nishimura Y, etal., Biochem Biophys Res Commun 1999 Jan 8;254(1):21-6.
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Promotion of neurite extension by protrudin requires its interaction with vesicle-associated membrane protein-associated protein. Saita S, etal., J Biol Chem. 2009 May 15;284(20):13766-77. doi: 10.1074/jbc.M807938200. Epub 2009 Mar 16.
11. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
12. Arl6IP1 has the ability to shape the mammalian ER membrane in a reticulon-like fashion. Yamamoto Y, etal., Biochem J. 2014 Feb 15;458(1):69-79. doi: 10.1042/BJ20131186.
Additional References at PubMed
PMID:10523508   PMID:10655491   PMID:12477932   PMID:12761501   PMID:15489334   PMID:16025302   PMID:16227268   PMID:16791210   PMID:16895911   PMID:18504258   PMID:18713837   PMID:19515777  
PMID:20178991   PMID:21700703   PMID:24105263   PMID:25468996   PMID:29476059   PMID:29941597   PMID:30741634   PMID:31594761  


Genomics

Comparative Map Data
Vapa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29105,177,904 - 105,208,400 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl9105,177,907 - 105,207,847 (-)Ensembl
Rnor_6.09113,300,831 - 113,331,872 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9113,300,832 - 113,331,319 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09112,833,701 - 112,864,112 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49104,339,039 - 104,368,908 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.19104,548,519 - 104,578,388 (-)NCBI
Celera9102,564,697 - 102,594,412 (-)NCBICelera
Cytogenetic Map9q37NCBI
VAPA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38189,914,016 - 9,960,021 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl189,914,016 - 9,960,021 (+)EnsemblGRCh38hg38GRCh38
GRCh37189,914,013 - 9,960,018 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36189,903,955 - 9,950,018 (+)NCBINCBI36hg18NCBI36
Build 34189,903,983 - 9,949,571NCBI
Celera189,797,515 - 9,843,493 (+)NCBI
Cytogenetic Map18p11.22NCBI
HuRef189,893,891 - 9,921,843 (+)NCBIHuRef
CHM1_1189,913,226 - 9,959,178 (+)NCBICHM1_1
T2T-CHM13v2.01810,077,467 - 10,123,397 (+)NCBI
Vapa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391765,887,048 - 65,925,441 (-)NCBIGRCm39mm39
GRCm39 Ensembl1765,885,322 - 65,920,550 (-)Ensembl
GRCm381765,580,053 - 65,616,462 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1765,578,327 - 65,613,555 (-)EnsemblGRCm38mm10GRCm38
MGSCv371765,929,393 - 65,962,895 (-)NCBIGRCm37mm9NCBIm37
MGSCv361765,479,598 - 65,513,084 (-)NCBImm8
Celera1769,883,322 - 69,916,704 (-)NCBICelera
Cytogenetic Map17E1.1NCBI
Vapa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554022,270,850 - 2,298,227 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554022,274,248 - 2,309,461 (-)NCBIChiLan1.0ChiLan1.0
VAPA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1186,613,042 - 6,642,425 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl186,612,105 - 6,637,829 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0184,329,479 - 4,373,047 (-)NCBIMhudiblu_PPA_v0panPan3
VAPA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1775,844,927 - 75,891,811 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl775,845,000 - 75,889,076 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha775,242,387 - 75,289,206 (+)NCBI
ROS_Cfam_1.0775,905,356 - 75,948,878 (+)NCBI
ROS_Cfam_1.0 Ensembl775,905,322 - 75,949,488 (+)Ensembl
UMICH_Zoey_3.1775,603,405 - 75,650,255 (+)NCBI
UNSW_CanFamBas_1.0775,621,438 - 75,668,178 (+)NCBI
UU_Cfam_GSD_1.0775,930,605 - 75,977,554 (+)NCBI
Vapa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049442,321,989 - 2,357,518 (-)NCBI
SpeTri2.0NW_0049366261,550,305 - 1,585,783 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VAPA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl698,210,053 - 98,254,226 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1698,212,335 - 98,254,272 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
VAPA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11868,784,786 - 68,825,333 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1868,784,799 - 68,827,581 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605043,739,425 - 43,782,261 (+)NCBIVero_WHO_p1.0
Vapa
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477018,411,789 - 18,447,009 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462477018,411,921 - 18,447,004 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH76596  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29105,177,948 - 105,178,119 (+)MAPPERmRatBN7.2
Rnor_6.09113,300,876 - 113,301,046NCBIRnor6.0
Rnor_5.09112,833,746 - 112,833,916UniSTSRnor5.0
RGSC_v3.49104,339,084 - 104,339,254UniSTSRGSC3.4
Celera9102,564,742 - 102,564,912UniSTS
Cytogenetic Map9q37UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:526
Count of miRNA genes:251
Interacting mature miRNAs:307
Transcripts:ENSRNOT00000020681
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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020681   ⟹   ENSRNOP00000020681
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9105,177,907 - 105,207,847 (-)Ensembl
Rnor_6.0 Ensembl9113,300,832 - 113,331,319 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086340   ⟹   ENSRNOP00000074577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9105,177,907 - 105,191,458 (-)Ensembl
Rnor_6.0 Ensembl9113,301,256 - 113,328,428 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113264   ⟹   ENSRNOP00000083505
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9105,177,907 - 105,207,847 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117261   ⟹   ENSRNOP00000089269
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9105,177,907 - 105,204,749 (-)Ensembl
RefSeq Acc Id: NM_031631   ⟹   NP_113819
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,177,904 - 105,207,847 (-)NCBI
Rnor_6.09113,300,831 - 113,331,319 (-)NCBI
Rnor_5.09112,833,701 - 112,864,112 (-)NCBI
RGSC_v3.49104,339,039 - 104,368,908 (-)RGD
Celera9102,564,697 - 102,594,412 (-)RGD
Sequence:
RefSeq Acc Id: XM_008767384   ⟹   XP_008765606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,177,904 - 105,208,400 (-)NCBI
Rnor_6.09113,300,831 - 113,331,872 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039084144   ⟹   XP_038940072
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,177,904 - 105,207,808 (-)NCBI
RefSeq Acc Id: XM_039084145   ⟹   XP_038940073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,177,904 - 105,204,764 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_113819   ⟸   NM_031631
- UniProtKB: Q9Z270 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008765606   ⟸   XM_008767384
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000020681   ⟸   ENSRNOT00000020681
RefSeq Acc Id: ENSRNOP00000074577   ⟸   ENSRNOT00000086340
RefSeq Acc Id: XP_038940072   ⟸   XM_039084144
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038940073   ⟸   XM_039084145
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000083505   ⟸   ENSRNOT00000113264
RefSeq Acc Id: ENSRNOP00000089269   ⟸   ENSRNOT00000117261
Protein Domains
MSP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z270-F1-model_v2 AlphaFold Q9Z270 1-249 view protein structure

Transcriptome

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

Promoters
RGD ID:13696902
Promoter ID:EPDNEW_R7426
Type:initiation region
Name:Vapa_1
Description:VAMP associated protein A
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_6.09113,331,278 - 113,331,338EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61803 AgrOrtholog
BioCyc Gene G2FUF-26488 BioCyc
Ensembl Genes ENSRNOG00000014765 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020681 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074577.2 UniProtKB/TrEMBL
  ENSRNOP00000083505 ENTREZGENE
  ENSRNOP00000083505.1 UniProtKB/TrEMBL
  ENSRNOP00000089269 ENTREZGENE
  ENSRNOP00000089269.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020681 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086340.2 UniProtKB/TrEMBL
  ENSRNOT00000113264 ENTREZGENE
  ENSRNOT00000113264.1 UniProtKB/TrEMBL
  ENSRNOT00000117261 ENTREZGENE
  ENSRNOT00000117261.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598274 IMAGE-MGC_LOAD
InterPro Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MSP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PapD-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:58857 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72396 IMAGE-MGC_LOAD
NCBI Gene 58857 ENTREZGENE
PANTHER PTHR10809 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Motile_Sperm UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vapa PhenoGen
PIRSF VAMP-associated UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE MSP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49354 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC217149
UniProt A0A0G2K8E6_RAT UniProtKB/TrEMBL
  A0A8I5ZVH7_RAT UniProtKB/TrEMBL
  A0A8I6GHY4_RAT UniProtKB/TrEMBL
  Q9Z270 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6P723 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-11 Vapa  VAMP associated protein A  Vapa  VAMP (vesicle-associated membrane protein)-associated protein A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-15 Vapa  VAMP (vesicle-associated membrane protein)-associated protein A  Vapa  vesicle-associated membrane protein, associated protein a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Vapa  vesicle-associated membrane protein, associated protein a      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains coiled-coil, t-SNARE homology domain near the carboxyl-terminal 61779
gene_expression ubiquitously expressed 61779