Syt2 (synaptotagmin 2) - Rat Genome Database

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Gene: Syt2 (synaptotagmin 2) Rattus norvegicus
Analyze
Symbol: Syt2
Name: synaptotagmin 2
RGD ID: 3804
Description: Enables calcium-dependent phospholipid binding activity and syntaxin binding activity. Predicted to be involved in positive regulation of dendrite extension and synaptic vesicle cycle. Located in terminal bouton. Is active in synaptic vesicle membrane. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome and congenital myasthenic syndrome 7. Orthologous to human SYT2 (synaptotagmin 2); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: RATSYNII; synaptotagmin II; synaptotagmin-2; SYNII; sytII
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Is Marker For: Strains:   SS.SR-(Syt2-D13Mit1)/Jr  
QTLs:   Thym2   Bp159  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,639,634 - 48,749,814 (+)NCBIGRCr8
mRatBN7.21346,088,046 - 46,197,976 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1346,185,282 - 46,193,859 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1348,791,632 - 48,800,091 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01350,079,700 - 50,088,159 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01347,345,602 - 47,354,226 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,569,248 - 51,577,824 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,534,025 - 51,578,052 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01356,621,954 - 56,630,530 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41347,690,518 - 47,699,094 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11347,704,560 - 47,713,137 (+)NCBI
Celera1346,512,022 - 46,520,623 (+)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Crystal structures of botulinum neurotoxin DC in complex with its protein receptors synaptotagmin I and II. Berntsson RP, etal., Structure. 2013 Sep 3;21(9):1602-11. doi: 10.1016/j.str.2013.06.026. Epub 2013 Aug 8.
2. Direct interaction of the calcium sensor protein synaptotagmin I with a cytoplasmic domain of the alpha1A subunit of the P/Q-type calcium channel. Charvin N, etal., EMBO J. 1997 Aug 1;16(15):4591-6.
3. Congenic mapping and sequence analysis of the Renin locus. Flister MJ, etal., Hypertension. 2013 Apr;61(4):850-6. doi: 10.1161/HYPERTENSIONAHA.111.01008. Epub 2013 Mar 4.
4. 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.
5. Synaptotagmin II. A novel differentially distributed form of synaptotagmin. Geppert M, etal., J Biol Chem 1991 Jul 25;266(21):13548-52.
6. Botulinum neurotoxin B recognizes its protein receptor with high affinity and specificity. Jin R, etal., Nature. 2006 Dec 21;444(7122):1092-5. Epub 2006 Dec 13.
7. WNK1 phosphorylates synaptotagmin 2 and modulates its membrane binding. Lee BH, etal., Mol Cell. 2004 Sep 10;15(5):741-51.
8. Ca(2+)-dependent and -independent activities of neural and non-neural synaptotagmins. Li C, etal., Nature 1995 Jun 15;375(6532):594-9.
9. The synaptic vesicle protein 2C mediates the uptake of botulinum neurotoxin A into phrenic nerves. Mahrhold S, etal., FEBS Lett. 2006 Apr 3;580(8):2011-4. Epub 2006 Mar 7.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Calcium-dependent oligomerization of synaptotagmins I and II. Synaptotagmins I and II are localized on the same synaptic vesicle and heterodimerize in the presence of calcium. Osborne SL, etal., J Biol Chem. 1999 Jan 1;274(1):59-66.
13. GOA pipeline RGD automated data pipeline
14. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Human synaptotagmin-II is not a high affinity receptor for botulinum neurotoxin B and G: increased therapeutic dosage and immunogenicity. Strotmeier J, etal., FEBS Lett. 2012 Feb 17;586(4):310-3. doi: 10.1016/j.febslet.2011.12.037. Epub 2012 Jan 16.
17. Gene-based anchoring of the rat genetic linkage and cytogenetic maps: new regional localizations, orientation of the linkage groups, and insights into mammalian chromosome evolution. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
18. Synaptotagmin-2, and -1, linked to neurotransmission impairment and vulnerability in Spinal Muscular Atrophy. Tejero R, etal., Hum Mol Genet. 2016 Aug 29. pii: ddw297.
19. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
20. 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.
21. Interval mapping and congenic strains for a blood pressure QTL on rat chromosome 13. Zhang QY, etal., Mamm Genome 1997 Sep;8(9):636-41
Additional References at PubMed
PMID:7961887   PMID:7993622   PMID:8626542   PMID:10715114   PMID:10737807   PMID:12118064   PMID:12860971   PMID:14504267   PMID:14709554   PMID:16116949   PMID:16212888   PMID:17192432  
PMID:19709630   PMID:21456023   PMID:22871113   PMID:23172916   PMID:23999003   PMID:29476059   PMID:31431523   PMID:32357304  


Genomics

Comparative Map Data
Syt2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,639,634 - 48,749,814 (+)NCBIGRCr8
mRatBN7.21346,088,046 - 46,197,976 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1346,185,282 - 46,193,859 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1348,791,632 - 48,800,091 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01350,079,700 - 50,088,159 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01347,345,602 - 47,354,226 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,569,248 - 51,577,824 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,534,025 - 51,578,052 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01356,621,954 - 56,630,530 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41347,690,518 - 47,699,094 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11347,704,560 - 47,713,137 (+)NCBI
Celera1346,512,022 - 46,520,623 (+)NCBICelera
Cytogenetic Map13q13NCBI
SYT2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381202,590,596 - 202,710,454 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1202,590,596 - 202,710,454 (-)EnsemblGRCh38hg38GRCh38
GRCh371202,559,724 - 202,679,582 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361200,831,511 - 200,946,168 (-)NCBINCBI36Build 36hg18NCBI36
Build 341199,296,544 - 199,411,202NCBI
Celera1175,686,865 - 175,807,438 (-)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1173,725,569 - 173,845,371 (-)NCBIHuRef
CHM1_11203,981,971 - 204,101,776 (-)NCBICHM1_1
T2T-CHM13v2.01201,852,402 - 201,972,645 (-)NCBIT2T-CHM13v2.0
Syt2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391134,574,319 - 134,680,887 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1134,574,415 - 134,690,331 (+)EnsemblGRCm39 Ensembl
GRCm381134,646,534 - 134,753,149 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1134,646,677 - 134,762,593 (+)EnsemblGRCm38mm10GRCm38
MGSCv371136,543,258 - 136,645,994 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361136,463,092 - 136,565,828 (+)NCBIMGSCv36mm8
Celera1137,257,554 - 137,373,520 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map158.24NCBI
Syt2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540638,643,911 - 38,743,222 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540638,638,192 - 38,743,077 (-)NCBIChiLan1.0ChiLan1.0
SYT2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2146,671,196 - 46,785,814 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1146,637,844 - 46,758,650 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01178,187,872 - 178,308,522 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11182,484,225 - 182,605,743 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1182,490,401 - 182,538,123 (-)Ensemblpanpan1.1panPan2
SYT2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.17497,387 - 509,338 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl7497,394 - 502,952 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha7478,659 - 557,321 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.07433,590 - 512,581 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl7433,409 - 512,622 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.17422,285 - 501,206 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.07531,125 - 609,898 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.07554,413 - 633,358 (+)NCBIUU_Cfam_GSD_1.0
Syt2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934472,642,164 - 72,749,746 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365671,941,639 - 1,984,428 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365671,941,651 - 1,984,422 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYT2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1024,638,704 - 24,669,846 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11024,638,645 - 24,727,198 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21029,086,244 - 29,094,379 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYT2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12526,702,627 - 26,821,108 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2526,808,007 - 26,817,314 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605527,480,660 - 27,602,721 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Syt2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248078,160,431 - 8,196,916 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248078,103,665 - 8,201,567 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Syt2
746 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:246
Count of miRNA genes:163
Interacting mature miRNAs:180
Transcripts:ENSRNOT00000006637
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134343790447841255Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134522835847841255Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat

Markers in Region
D13Wox6  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01356,629,542 - 56,629,737NCBIRnor5.0
RGSC_v3.41347,698,107 - 47,698,301RGDRGSC3.4
RGSC_v3.11347,712,150 - 47,712,344RGD
RH 3.4 Map13172.5RGD
RH 2.0 Map13381.3RGD
D13Arb8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21346,192,872 - 46,193,066 (+)MAPPERmRatBN7.2
Rnor_6.01351,576,838 - 51,577,031NCBIRnor6.0
Rnor_5.01356,629,544 - 56,629,737UniSTSRnor5.0
RGSC_v3.41347,698,108 - 47,698,301UniSTSRGSC3.4
Celera1346,519,637 - 46,519,830UniSTS
RH 3.4 Map13172.5UniSTS
SHRSP x BN Map1314.7798UniSTS
SHRSP x BN Map1314.7798RGD
Cytogenetic Map13q13UniSTS
D13Mgh18  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map13193.8UniSTS
RH 3.4 Map13193.8RGD
Cytogenetic Map13q13UniSTS
D13Rjr1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01356,629,544 - 56,629,737UniSTSRnor5.0
RGSC_v3.11347,712,150 - 47,712,344RGD
Celera1346,519,637 - 46,519,830UniSTS
RH 3.4 Map13172.5UniSTS
SHRSP x BN Map1314.7798UniSTS
Cytogenetic Map13q13UniSTS
D19Mgh6  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map13193.8UniSTS
RH 2.0 Map13366.6RGD


Related Rat Strains
The following Strains have been annotated to Syt2
SS.SR-(Syt2-D13Mit1)/Jr    


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 32
Low 42 8 29
Below cutoff 3 15 39 23 19 23 6 7 26 10 11 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006637   ⟹   ENSRNOP00000006637
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1346,185,282 - 46,193,859 (+)Ensembl
Rnor_6.0 Ensembl1351,534,025 - 51,578,052 (+)Ensembl
RefSeq Acc Id: NM_012665   ⟹   NP_036797
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,737,122 - 48,745,698 (+)NCBI
mRatBN7.21346,185,282 - 46,193,859 (+)NCBI
Rnor_6.01351,569,248 - 51,577,824 (+)NCBI
Rnor_5.01356,621,954 - 56,630,530 (+)NCBI
RGSC_v3.41347,690,518 - 47,699,094 (+)RGD
Celera1346,512,022 - 46,520,623 (+)RGD
Sequence:
RefSeq Acc Id: XM_039090348   ⟹   XP_038946276
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,702,823 - 48,749,814 (+)NCBI
mRatBN7.21346,151,004 - 46,197,976 (+)NCBI
RefSeq Acc Id: XM_039090349   ⟹   XP_038946277
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,639,634 - 48,749,814 (+)NCBI
mRatBN7.21346,088,046 - 46,197,976 (+)NCBI
RefSeq Acc Id: XM_039090350   ⟹   XP_038946278
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,703,866 - 48,749,814 (+)NCBI
mRatBN7.21346,152,068 - 46,197,976 (+)NCBI
RefSeq Acc Id: XM_063272035   ⟹   XP_063128105
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,703,275 - 48,749,814 (+)NCBI
RefSeq Acc Id: XM_063272036   ⟹   XP_063128106
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,739,356 - 48,749,814 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_036797   ⟸   NM_012665
- UniProtKB: G3V6M3 (UniProtKB/TrEMBL),   A6ICC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006637   ⟸   ENSRNOT00000006637
RefSeq Acc Id: XP_038946277   ⟸   XM_039090349
- Peptide Label: isoform X1
- UniProtKB: G3V6M3 (UniProtKB/TrEMBL),   A6ICC8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946276   ⟸   XM_039090348
- Peptide Label: isoform X1
- UniProtKB: A6ICC8 (UniProtKB/TrEMBL),   G3V6M3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946278   ⟸   XM_039090350
- Peptide Label: isoform X1
- UniProtKB: G3V6M3 (UniProtKB/TrEMBL),   A6ICC8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128105   ⟸   XM_063272035
- Peptide Label: isoform X1
- UniProtKB: A6ICC8 (UniProtKB/TrEMBL),   G3V6M3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128106   ⟸   XM_063272036
- Peptide Label: isoform X2
Protein Domains
C2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P29101-F1-model_v2 AlphaFold P29101 1-422 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3804 AgrOrtholog
BIND 130562
BioCyc Gene G2FUF-18224 BioCyc
Ensembl Genes ENSRNOG00000004756 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055021595 UniProtKB/Swiss-Prot
  ENSRNOG00060014883 UniProtKB/Swiss-Prot
  ENSRNOG00065021046 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006637 ENTREZGENE
  ENSRNOT00000006637.5 UniProtKB/TrEMBL
  ENSRNOT00055036921 UniProtKB/Swiss-Prot
  ENSRNOT00060025448 UniProtKB/Swiss-Prot
  ENSRNOT00065035765 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Synaptotagmin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24805 UniProtKB/Swiss-Prot
NCBI Gene 24805 ENTREZGENE
PANTHER PTHR10024:SF223 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYNAPTOTAGMIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Syt2 PhenoGen
PRINTS C2DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYNAPTOTAGMN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004756 RatGTEx
  ENSRNOG00055021595 RatGTEx
  ENSRNOG00060014883 RatGTEx
  ENSRNOG00065021046 RatGTEx
SMART SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC210189
UniProt A6ICC8 ENTREZGENE, UniProtKB/TrEMBL
  G3V6M3 ENTREZGENE, UniProtKB/TrEMBL
  P29101 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-11 Syt2  synaptotagmin 2  Syt2  synaptotagmin II  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Syt2  synaptotagmin II    synaptotagmin 2  Name updated 1299863 APPROVED
2003-04-09 Syt2  synaptotagmin 2      Name updated 629478 APPROVED
2002-06-10 Syt2  synaptotagmin 2      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_function binds acidic phospholipids, neurexins, syntaxin, and AP2 61047
gene_process may have a regulatory role in the membrane interactions during trafficking of synaptic vesicles at the active zone of the synapse 61047
gene_product member of a family of calcium sensors regulating neurotransmitter release 61047