Vamp2 (vesicle-associated membrane protein 2) - Rat Genome Database

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Gene: Vamp2 (vesicle-associated membrane protein 2) Rattus norvegicus
Symbol: Vamp2
Name: vesicle-associated membrane protein 2
RGD ID: 3949
Description: Enables several functions, including calcium-dependent protein binding activity; syntaxin-1 binding activity; and transmembrane transporter binding activity. Involved in several processes, including SNARE complex assembly; exocytosis; and regulation of delayed rectifier potassium channel activity. Located in neuron projection terminus; plasma membrane; and secretory vesicle. Part of synaptobrevin 2-SNAP-25-syntaxin-1a complex; synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex; and synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex. Is active in synaptic vesicle membrane. Orthologous to human VAMP2 (vesicle associated membrane protein 2); PARTICIPATES IN insulin responsive facilitative sugar transporter mediated glucose transport pathway; insulin secretion pathway; vasopressin signaling pathway; INTERACTS WITH 1,1-bis(2-aminoethyl)-2-hydroxy-3-oxotriazane; 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
Previously known as: RATVAMPB; RATVAMPIR; SYB; Syb2; synaptobrevin 2; Synaptobrevin 2 (vesicle-associated membrane protein VAMP-2); synaptobrevin-2; VAMP-2; Vesicle-associated membrane protein (synaptobrevin 2)
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   WKY.SHRSP-(Asgr1-Vamp2)/Bbb   SS.MNS-(D10Mit11-Vamp2)/Mco   SS.MNS-(Vamp2-D10M11Mit84)/Mco  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.21053,793,581 - 53,797,815 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1053,793,923 - 53,797,809 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1058,455,722 - 58,459,585 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01057,944,320 - 57,948,183 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01053,452,495 - 53,456,350 (+)NCBIRnor_WKY
Rnor_6.01055,675,171 - 55,679,405 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1055,675,575 - 55,679,450 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01055,418,231 - 55,422,465 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41055,848,264 - 55,852,132 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11055,861,886 - 55,865,753 (+)NCBI
Celera1052,959,486 - 52,963,354 (+)NCBICelera
Cytogenetic Map10q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-bis(2-aminoethyl)-2-hydroxy-3-oxotriazane  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
ammonium chloride  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
buta-1,3-diene  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
capsaicin  (EXP)
carbon nanotube  (ISO)
cisplatin  (ISO)
clozapine  (EXP)
cobalt dichloride  (ISO)
D-gluconic acid  (EXP)
decabromodiphenyl ether  (EXP)
deoxycholic acid  (EXP)
dexamethasone  (EXP)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (EXP,ISO)
fulvestrant  (ISO)
gamma-tocopherol  (ISO)
haloperidol  (EXP)
hydrazines  (ISO)
hypochlorous acid  (ISO)
ivermectin  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (ISO)
methylparaben  (ISO)
nicotinamide  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
parathion  (ISO)
PCB138  (EXP)
pirinixic acid  (ISO)
pravastatin  (ISO)
propiconazole  (ISO)
resveratrol  (EXP,ISO)
streptozocin  (EXP)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
tocopherol  (ISO)
trichloroethene  (EXP)
trimethylamine N-oxide  (EXP)
urethane  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View


References - curated
# Reference Title Reference Citation
1. The SNARE Vti1a-beta is localized to small synaptic vesicles and participates in a novel SNARE complex. Antonin W, etal., J Neurosci 2000 Aug 1;20(15):5724-32.
2. Role of SNAP-23 in trafficking of H+-ATPase in cultured inner medullary collecting duct cells. Banerjee A, etal., Am J Physiol Cell Physiol. 2001 Apr;280(4):C775-81.
3. Physiology and pathophysiology of the vasopressin-regulated renal water reabsorption. Boone M and Deen PM, Pflugers Arch. 2008 Sep;456(6):1005-24. Epub 2008 Apr 23.
4. Mutational analysis of synaptobrevin transmembrane domain oligomerization. Bowen ME, etal., Biochemistry 2002 Dec 31;41(52):15861-6.
5. Negative regulation of syntaxin4/SNAP-23/VAMP2-mediated membrane fusion by Munc18c in vitro. Brandie FM, etal., PLoS One. 2008;3(12):e4074. doi: 10.1371/journal.pone.0004074. Epub 2008 Dec 31.
6. Changes in mRNA for VAMPs following facial nerve transection. Che YH, etal., J Chem Neuroanat 2002 Jul;24(2):147-52.
7. Single-molecule FRET-derived model of the synaptotagmin 1-SNARE fusion complex. Choi UB, etal., Nat Struct Mol Biol. 2010 Mar;17(3):318-24. doi: 10.1038/nsmb.1763. Epub 2010 Feb 21.
8. Expression of two membrane fusion proteins, synaptosome-associated protein of 25 kDa and vesicle-associated membrane protein, in choroid plexus epithelium. Chung I, etal., Neuroscience 2003;116(2):349-57.
9. Locus for the inducible, but not a constitutive, nitric oxide synthase cosegregates with blood pressure in the Dahl salt-sensitive rat. Deng AY and Rapp JP, J Clin Invest 1995 May;95(5):2170-7
10. Two vesicle-associated membrane protein genes are differentially expressed in the rat central nervous system. Elferink LA, etal., J Biol Chem 1989 Jul 5;264(19):11061-4.
11. Dynamic structure of lipid-bound synaptobrevin suggests a nucleation-propagation mechanism for trans-SNARE complex formation. Ellena JF, etal., Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20306-11. doi: 10.1073/pnas.0908317106. Epub 2009 Nov 16.
12. Identification of a minimal core of the synaptic SNARE complex sufficient for reversible assembly and disassembly. Fasshauer D, etal., Biochemistry. 1998 Jul 21;37(29):10354-62.
13. The V0 sector of the V-ATPase, synaptobrevin, and synaptophysin are associated on synaptic vesicles in a Triton X-100-resistant, freeze-thawing sensitive, complex. Galli T, etal., J Biol Chem. 1996 Jan 26;271(4):2193-8.
14. 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.
15. Differential vesicular sorting of AMPA and GABAA receptors. Gu Y, etal., Proc Natl Acad Sci U S A. 2016 Feb 16;113(7):E922-31. doi: 10.1073/pnas.1525726113. Epub 2016 Feb 2.
16. Possible roles for Munc18-1 domain 3a and Syntaxin1 N-peptide and C-terminal anchor in SNARE complex formation. Hu SH, etal., Proc Natl Acad Sci U S A. 2011 Jan 18;108(3):1040-5. doi: 10.1073/pnas.0914906108. Epub 2010 Dec 30.
17. Antibodies raised against aldehyde-fixed antigens improve sensitivity for postembedding electron microscopy. Hussain S, etal., J Neurosci Methods. 2019 Apr 1;317:1-10. doi: 10.1016/j.jneumeth.2019.01.015. Epub 2019 Jan 28.
18. Insulin stimulates syntaxin4 SNARE complex assembly via a novel regulatory mechanism. Kioumourtzoglou D, etal., Mol Cell Biol. 2014 Apr;34(7):1271-9. doi: 10.1128/MCB.01203-13. Epub 2014 Jan 27.
19. SNARE motif-mediated sorting of synaptobrevin by the endocytic adaptors clathrin assembly lymphoid myeloid leukemia (CALM) and AP180 at synapses. Koo SJ, etal., Proc Natl Acad Sci U S A. 2011 Aug 16;108(33):13540-5. doi: 10.1073/pnas.1107067108. Epub 2011 Aug 1.
20. SNAREs in native plasma membranes are active and readily form core complexes with endogenous and exogenous SNAREs. Lang T, etal., J Cell Biol 2002 Aug 19;158(4):751-60.
21. The GLUT4 code. Larance M, etal., Mol Endocrinol. 2008 Feb;22(2):226-33. Epub 2007 Aug 23.
22. A Bcl-xL-Drp1 complex regulates synaptic vesicle membrane dynamics during endocytosis. Li H, etal., Nat Cell Biol. 2013 Jul;15(7):773-85. doi: 10.1038/ncb2791. Epub 2013 Jun 23.
23. Protein kinase D 3 is localized in vesicular structures and interacts with vesicle-associated membrane protein 2. Lu G, etal., Cell Signal. 2007 Apr;19(4):867-79. Epub 2006 Nov 16.
24. Rearrangements in the relative orientation of cytoplasmic domains induced by a membrane-anchored protein mediate modulations in Kv channel gating. Lvov A, etal., J Biol Chem. 2009 Oct 9;284(41):28276-91. doi: 10.1074/jbc.M109.028761. Epub 2009 Aug 18.
25. A plethora of presynaptic proteins associated with ATP-storing organelles in cultured astrocytes. Maienschein V, etal., Glia. 1999 May;26(3):233-44.
26. The Habc domain and the SNARE core complex are connected by a highly flexible linker. Margittai M, etal., Biochemistry. 2003 Apr 15;42(14):4009-14.
27. Isolation and characterization of a dual prenylated Rab and VAMP2 receptor. Martincic I, etal., J Biol Chem 1997 Oct 24;272(43):26991-8.
28. Complexins: cytosolic proteins that regulate SNAP receptor function. McMahon HT, etal., Cell 1995 Oct 6;83(1):111-9.
29. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
30. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
31. A direct interaction between Cdc42 and vesicle-associated membrane protein 2 regulates SNARE-dependent insulin exocytosis. Nevins AK and Thurmond DC, J Biol Chem. 2005 Jan 21;280(3):1944-52. Epub 2004 Nov 9.
32. Protein oligomerization mediated by the transmembrane carboxyl terminal domain of Bcl-XL. Ospina A, etal., FEBS Lett. 2011 Oct 3;585(19):2935-42. doi: 10.1016/j.febslet.2011.08.012. Epub 2011 Aug 16.
33. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
34. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
35. GOA pipeline RGD automated data pipeline
36. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
37. Spring-loaded unraveling of a single SNARE complex by NSF in one round of ATP turnover. Ryu JK, etal., Science. 2015 Mar 27;347(6229):1485-9. doi: 10.1126/science.aaa5267.
38. Tetanus and botulinum-B neurotoxins block neurotransmitter release by proteolytic cleavage of synaptobrevin. Schiavo G, etal., Nature. 1992 Oct 29;359(6398):832-5. doi: 10.1038/359832a0.
39. Sr2+ binding to the Ca2+ binding site of the synaptotagmin 1 C2B domain triggers fast exocytosis without stimulating SNARE interactions. Shin OH, etal., Neuron. 2003 Jan 9;37(1):99-108.
40. SNAP-23 participates in SNARE complex assembly in rat adipose cells. St-Denis JF, etal., Biochem J 1999 Mar 15;338 ( Pt 3):709-15.
41. Helical extension of the neuronal SNARE complex into the membrane. Stein A, etal., Nature. 2009 Jul 23;460(7254):525-8. doi: 10.1038/nature08156. Epub 2009 Jul 1.
42. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
43. Molecular anatomy of a trafficking organelle. Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
44. Isoproterenol stimulates transient SNAP23-VAMP2 interaction in rat parotid glands. Takuma T, etal., FEBS Lett. 2013 Mar 18;587(6):583-9. doi: 10.1016/j.febslet.2013.01.039. Epub 2013 Feb 1.
45. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
46. Direct interaction of SNARE complex binding protein synaphin/complexin with calcium sensor synaptotagmin 1. Tokumaru H, etal., Brain Cell Biol. 2008 Dec;36(5-6):173-89. doi: 10.1007/s11068-008-9032-9. Epub 2009 Jan 9.
47. Cis- and trans-membrane interactions of synaptotagmin-1. Vennekate W, etal., Proc Natl Acad Sci U S A. 2012 Jul 3;109(27):11037-42. doi: 10.1073/pnas.1116326109. Epub 2012 Jun 18.
48. Mechanisms of biphasic insulin-granule exocytosis - roles of the cytoskeleton, small GTPases and SNARE proteins. Wang Z and Thurmond DC, J Cell Sci. 2009 Apr 1;122(Pt 7):893-903.
49. Myosin-Va regulates exocytosis through the submicromolar Ca2+-dependent binding of syntaxin-1A. Watanabe M, etal., Mol Biol Cell. 2005 Oct;16(10):4519-30. Epub 2005 Jul 19.
50. Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
51. Transcriptome analysis of frontal cortex in alcohol-preferring and nonpreferring rats. Worst TJ, etal., J Neurosci Res 2005 May 15;80(4):529-38.
52. The Kv2.1 channels mediate neuronal apoptosis induced by excitotoxicity. Yao H, etal., J Neurochem. 2009 Feb;108(4):909-19. doi: 10.1111/j.1471-4159.2008.05834.x. Epub 2008 Dec 10.
53. LRRK2 phosphorylates Snapin and inhibits interaction of Snapin with SNAP-25. Yun HJ, etal., Exp Mol Med. 2013 Aug 16;45:e36. doi: 10.1038/emm.2013.68.
54. Insulin action on glucose transporters through molecular switches, tracks and tethers. Zaid H, etal., Biochem J. 2008 Jul 15;413(2):201-15.
55. Mechanistic insights into the recycling machine of the SNARE complex. Zhao M, etal., Nature. 2015 Feb 5;518(7537):61-7. doi: 10.1038/nature14148. Epub 2015 Jan 12.
Additional References at PubMed
PMID:8760387   PMID:9759724   PMID:10371166   PMID:10644763   PMID:11691998   PMID:11832227   PMID:12130530   PMID:12145198   PMID:12181340   PMID:12192047   PMID:12490950   PMID:12496247  
PMID:12730201   PMID:12855681   PMID:14528015   PMID:14983476   PMID:15071120   PMID:15086514   PMID:15109254   PMID:15145078   PMID:15327778   PMID:15489334   PMID:15920476   PMID:16144963  
PMID:16169186   PMID:16322057   PMID:16677249   PMID:16888141   PMID:17272274   PMID:17313651   PMID:17468895   PMID:17548353   PMID:18042464   PMID:18086678   PMID:18227281   PMID:18253931  
PMID:18385322   PMID:18505797   PMID:18508917   PMID:18511418   PMID:18535671   PMID:18542995   PMID:18570252   PMID:18703708   PMID:18706977   PMID:18827011   PMID:19253017   PMID:19478182  
PMID:19546860   PMID:19603498   PMID:19675279   PMID:19843696   PMID:20005125   PMID:20186959   PMID:20582536   PMID:20633536   PMID:20801128   PMID:20829354   PMID:20937897   PMID:20943658  
PMID:21040848   PMID:21266332   PMID:21556117   PMID:21646859   PMID:21730064   PMID:21768342   PMID:21828338   PMID:22094010   PMID:22144578   PMID:22375059   PMID:22411134   PMID:22571236  
PMID:22905234   PMID:23009845   PMID:23376485   PMID:23395379   PMID:23641074   PMID:23643538   PMID:23791195   PMID:24356748   PMID:24534378   PMID:24794856   PMID:24878716   PMID:25008321  
PMID:25374362   PMID:25481410   PMID:26851777   PMID:26854222   PMID:28483813   PMID:28588281   PMID:29476059   PMID:29949059   PMID:30929742   PMID:31686426   PMID:32210233   PMID:32467162  
PMID:33513363   PMID:34496238  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.21053,793,581 - 53,797,815 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1053,793,923 - 53,797,809 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1058,455,722 - 58,459,585 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01057,944,320 - 57,948,183 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01053,452,495 - 53,456,350 (+)NCBIRnor_WKY
Rnor_6.01055,675,171 - 55,679,405 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1055,675,575 - 55,679,450 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01055,418,231 - 55,422,465 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41055,848,264 - 55,852,132 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11055,861,886 - 55,865,753 (+)NCBI
Celera1052,959,486 - 52,963,354 (+)NCBICelera
Cytogenetic Map10q24NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh38178,159,147 - 8,162,948 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl178,159,149 - 8,163,546 (-)EnsemblGRCh38hg38GRCh38
GRCh37178,062,465 - 8,066,266 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36178,003,189 - 8,007,017 (-)NCBINCBI36Build 36hg18NCBI36
Build 34178,003,188 - 8,007,017NCBI
Celera178,089,806 - 8,093,640 (-)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef177,957,475 - 7,960,724 (-)NCBIHuRef
CHM1_1178,071,269 - 8,075,097 (-)NCBICHM1_1
T2T-CHM13v2.0178,064,587 - 8,068,400 (-)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm391168,979,354 - 68,983,207 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1168,979,316 - 68,983,210 (+)EnsemblGRCm39 Ensembl
GRCm381169,088,528 - 69,092,381 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,088,490 - 69,092,384 (+)EnsemblGRCm38mm10GRCm38
MGSCv371168,902,030 - 68,905,883 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,904,723 - 68,908,576 (+)NCBIMGSCv36mm8
Celera1176,032,081 - 76,035,943 (+)NCBICelera
Cytogenetic Map11B3NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_0049554678,793,296 - 8,796,771 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554678,793,296 - 8,796,771 (+)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
PanPan1.11748,228,253 - 48,231,948 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1748,228,253 - 48,231,948 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01743,495,464 - 43,499,348 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
CanFam3.1532,975,372 - 32,977,967 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha533,111,535 - 33,114,048 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0533,078,395 - 33,080,876 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl533,077,052 - 33,080,884 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1533,045,188 - 33,047,701 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0533,000,996 - 33,003,510 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0533,180,938 - 33,183,450 (-)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_02440560247,911,504 - 47,915,326 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365951,385,695 - 1,389,552 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365951,385,692 - 1,389,484 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl1253,378,409 - 53,382,240 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11253,378,407 - 53,382,243 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21255,853,614 - 55,857,435 (-)NCBISscrofa10.2Sscrofa10.2susScr3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.1167,539,098 - 7,542,466 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605913,862,312 - 13,866,164 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla_female_1.0 EnsemblNW_00462478610,724,964 - 10,727,649 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478610,723,791 - 10,727,654 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Vamp2
11 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:519
Count of miRNA genes:235
Interacting mature miRNAs:304
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 (
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)104944455181709989Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
1578762Toxo1Toxoplasma gondii resistance QTL 1brain integrity trait (VT:0010579)percentage of study population displaying Toxoplasma gondii brain cysts at a point in time (CMO:0002028)105220003059378278Rat
1354585Eae18aExperimental allergic encephalomyelitis QTL 18a7.50.0004nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)105379738558445852Rat
2306787Ean3Experimental allergic neuritis QTL 33.1nervous system integrity trait (VT:0010566)body weight loss (CMO:0001399)105379738566979128Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21053,797,385 - 53,797,494 (+)MAPPERmRatBN7.2
Rnor_6.01055,678,976 - 55,679,084NCBIRnor6.0
Rnor_5.01055,422,036 - 55,422,144UniSTSRnor5.0
RGSC_v3.41055,851,702 - 55,851,811RGDRGSC3.4
RGSC_v3.41055,851,703 - 55,851,811UniSTSRGSC3.4
RGSC_v3.11055,865,325 - 55,865,434RGD
Celera1052,962,925 - 52,963,033UniSTS
SHRSP x BN Map1046.5699RGD
SHRSP x BN Map1046.5699UniSTS
Cytogenetic Map10q24UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10 RGD
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21053,797,250 - 53,797,551 (+)MAPPERmRatBN7.2
Rnor_6.01055,678,841 - 55,679,141NCBIRnor6.0
Rnor_5.01055,421,901 - 55,422,201UniSTSRnor5.0
RGSC_v3.41055,851,567 - 55,851,868RGDRGSC3.4
RGSC_v3.41055,851,568 - 55,851,868UniSTSRGSC3.4
RGSC_v3.11055,865,190 - 55,865,491RGD
Celera1052,962,790 - 52,963,090UniSTS
SHRSP x BN Map1046.5699UniSTS
SHRSP x BN Map1046.5699RGD
Cytogenetic Map10q24UniSTS

Related Rat Strains
The following Strains have been annotated to Vamp2


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 8
Medium 3 35 47 33 14 33 3 66 30 38 11
Low 8 10 8 5 8 8 8 5 3 8
Below cutoff


Reference Sequences
RefSeq Acc Id: ENSRNOT00000057295   ⟹   ENSRNOP00000054114
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1053,793,923 - 53,797,809 (+)Ensembl
Rnor_6.0 Ensembl1055,675,575 - 55,679,450 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111022   ⟹   ENSRNOP00000096610
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1053,794,183 - 53,796,102 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000112363   ⟹   ENSRNOP00000079371
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1053,793,964 - 53,796,102 (+)Ensembl
RefSeq Acc Id: NM_012663   ⟹   NP_036795
Rat AssemblyChrPosition (strand)Source
mRatBN7.21053,793,947 - 53,797,815 (+)NCBI
Rnor_6.01055,675,537 - 55,679,405 (+)NCBI
Rnor_5.01055,418,231 - 55,422,465 (+)NCBI
RGSC_v3.41055,848,264 - 55,852,132 (+)RGD
Celera1052,959,486 - 52,963,354 (+)RGD
RefSeq Acc Id: XM_006246593   ⟹   XP_006246655
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21053,793,581 - 53,796,052 (+)NCBI
Rnor_6.01055,675,171 - 55,677,643 (+)NCBI
Rnor_5.01055,418,231 - 55,422,465 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036795   ⟸   NM_012663
- UniProtKB: P63045 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246655   ⟸   XM_006246593
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZNB8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000054114   ⟸   ENSRNOT00000057295
RefSeq Acc Id: ENSRNOP00000079371   ⟸   ENSRNOT00000112363
RefSeq Acc Id: ENSRNOP00000096610   ⟸   ENSRNOT00000111022
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P63045-F1-model_v2 AlphaFold P63045 1-116 view protein structure


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

RGD ID:13697309
Promoter ID:EPDNEW_R7832
Type:initiation region
Description:vesicle-associated membrane protein 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Rat AssemblyChrPosition (strand)Source
Rnor_6.01055,675,530 - 55,675,590EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3949 AgrOrtholog
BIND 134142
BioCyc Gene G2FUF-24587 BioCyc
Ensembl Genes ENSRNOG00000006989 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000054114 ENTREZGENE
  ENSRNOP00000054114.4 UniProtKB/Swiss-Prot
  ENSRNOP00000079371.1 UniProtKB/TrEMBL
  ENSRNOP00000096610.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057295 ENTREZGENE
  ENSRNOT00000057295.4 UniProtKB/Swiss-Prot
  ENSRNOT00000111022.1 UniProtKB/TrEMBL
  ENSRNOT00000112363.1 UniProtKB/TrEMBL
Gene3D-CATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Synaptobrevin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Synaptobrevin/VAMP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V_SNARE_CC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24803 UniProtKB/Swiss-Prot
PANTHER PTHR45701 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR45701:SF5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Synaptobrevin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vamp2 PhenoGen
PIRSF Synaptobrevin_euk UniProtKB/Swiss-Prot
  V_SNARE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SNARE fusion complex UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC204053
  VAMP2_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q64357 UniProtKB/Swiss-Prot

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Vamp2  vesicle-associated membrane protein 2      Symbol and Name status set to approved 70586 APPROVED
2001-06-22 Syb2  Synaptobrevin 2 (vesicle-associated membrane protein, VAMP-2)      Symbol witdrawn, duplicate of Vamp2 (RGD:3949) 67952 WITHDRAWN
2001-06-22 Vamp2  Vesicle-associated membrane protein 2      Name updated, removed withdrawn gene name text 67952 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction forms a complex with soluble NSF attachment protein (SNAP) receptors syntaxin 1A and SNAP25 730202
gene_transcript mRNA upregulated in frontal cortex of AA rat strain compared to ANA rat strain 1358772
gene_transcript mRNA upregulated in frontal cortex of P(alcohol preferring) rat strain compared to NP (alcohol non-preferring) rat strain 1358772