Esyt3 (extended synaptotagmin 3) - Rat Genome Database

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Pathways
Gene: Esyt3 (extended synaptotagmin 3) Rattus norvegicus
Analyze
Symbol: Esyt3
Name: extended synaptotagmin 3
RGD ID: 1561304
Description: Predicted to enable calcium ion binding activity and phospholipid binding activity. Predicted to be involved in endoplasmic reticulum-plasma membrane tethering and lipid transport. Predicted to be located in cytoplasmic side of plasma membrane and endoplasmic reticulum-plasma membrane contact site. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human ESYT3 (extended synaptotagmin 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: extended synaptotagmin protein 3; extended synaptotagmin-3; extended synaptotagmin-like protein 3; Fam62c; family with sequence similarity 62 (C2 domain containing), member C; LOC363120; RGD1561304; similar to hypothetical protein D930024E11
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88108,749,761 - 108,796,630 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8108,750,489 - 108,796,572 (-)EnsemblGRCr8
mRatBN7.2899,870,418 - 99,917,298 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl899,871,149 - 99,917,232 (-)EnsemblmRatBN7.2
Rnor_6.08107,555,417 - 107,602,414 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,555,277 - 107,602,263 (-)Ensemblrn6Rnor6.0
Rnor_5.08106,981,121 - 107,027,963 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48104,171,726 - 104,216,761 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera899,272,485 - 99,319,481 (-)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17360437   PMID:23791178   PMID:30220461  


Genomics

Comparative Map Data
Esyt3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88108,749,761 - 108,796,630 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8108,750,489 - 108,796,572 (-)EnsemblGRCr8
mRatBN7.2899,870,418 - 99,917,298 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl899,871,149 - 99,917,232 (-)EnsemblmRatBN7.2
Rnor_6.08107,555,417 - 107,602,414 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,555,277 - 107,602,263 (-)Ensemblrn6Rnor6.0
Rnor_5.08106,981,121 - 107,027,963 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48104,171,726 - 104,216,761 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera899,272,485 - 99,319,481 (-)NCBICelera
Cytogenetic Map8q31NCBI
ESYT3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383138,434,616 - 138,481,686 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3138,434,586 - 138,481,686 (+)Ensemblhg38GRCh38
GRCh373138,153,458 - 138,200,528 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363139,636,109 - 139,678,399 (+)NCBIBuild 36Build 36hg18NCBI36
Celera3136,578,324 - 136,622,170 (+)NCBICelera
Cytogenetic Map3q22.3NCBI
HuRef3135,528,375 - 135,572,226 (+)NCBIHuRef
CHM1_13138,117,188 - 138,161,034 (+)NCBICHM1_1
T2T-CHM13v2.03141,175,169 - 141,222,247 (+)NCBIT2T-CHM13v2.0
Esyt3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39999,192,016 - 99,242,210 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl999,192,016 - 99,240,610 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38999,309,963 - 99,360,159 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl999,309,963 - 99,358,557 (-)Ensemblmm10GRCm38
MGSCv37999,210,386 - 99,258,949 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36999,119,495 - 99,167,882 (-)NCBIMGSCv36mm8
Celera998,843,495 - 98,893,869 (-)NCBICelera
Cytogenetic Map9E3.3NCBI
cM Map951.54NCBI
Esyt3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955501538,538 - 585,505 (-)Ensembl
ChiLan1.0NW_004955501537,195 - 585,640 (-)NCBIChiLan1.0ChiLan1.0
ESYT3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22136,340,722 - 136,384,571 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13136,345,050 - 136,392,918 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03135,463,698 - 135,509,417 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13142,913,450 - 142,958,684 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3142,913,450 - 142,958,684 (+)EnsemblpanPan2panpan1.1
ESYT3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12334,645,248 - 34,692,178 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2334,645,087 - 34,691,939 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2334,639,173 - 34,685,862 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02335,187,397 - 35,234,172 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2335,187,162 - 35,233,932 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12334,868,467 - 34,915,155 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02334,934,284 - 34,980,995 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02335,185,169 - 35,231,861 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Esyt3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560274,005,161 - 74,046,610 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936540744,980 - 785,113 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936540744,980 - 786,303 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ESYT3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1379,245,836 - 79,297,334 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11379,245,818 - 79,295,471 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21386,861,629 - 86,898,873 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ESYT3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11552,062,156 - 52,130,942 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1552,062,357 - 52,104,852 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604125,074,492 - 25,119,220 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Esyt3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473014,986,750 - 15,033,870 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473014,986,583 - 15,035,163 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Esyt3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1890,656,930 - 90,701,893 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Esyt3
161 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:333
Count of miRNA genes:201
Interacting mature miRNAs:239
Transcripts:ENSRNOT00000017658
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)863141536109261840Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
71120Niddm21Non-insulin dependent diabetes mellitus QTL 213.73blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)866992095111992095Rat
8693654Alc32Alcohol consumption QTL 3220.755drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)897492344116428905Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
AW532330  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2899,870,448 - 99,870,629 (+)MAPPERmRatBN7.2
Rnor_6.08107,555,444 - 107,555,624NCBIRnor6.0
Rnor_5.08106,981,148 - 106,981,328UniSTSRnor5.0
RGSC_v3.48104,170,113 - 104,170,293UniSTSRGSC3.4
Celera899,272,512 - 99,272,692UniSTS
RH 3.4 Map81039.59UniSTS
Cytogenetic Map8q31UniSTS
BM386519  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr88108,754,325 - 108,754,963 (+)Marker Load Pipeline
mRatBN7.2899,874,984 - 99,875,622 (+)MAPPERmRatBN7.2
Rnor_6.08107,559,980 - 107,560,617NCBIRnor6.0
Rnor_5.08106,985,684 - 106,986,321UniSTSRnor5.0
RGSC_v3.48104,174,649 - 104,175,286UniSTSRGSC3.4
Celera899,277,049 - 99,277,686UniSTS
RH 3.4 Map81038.79UniSTS
Cytogenetic Map8q31UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 9 64 140 82 81 50 70 50 6 318 165 11 113 80 92 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000017658   ⟹   ENSRNOP00000017658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8108,750,489 - 108,796,572 (-)Ensembl
mRatBN7.2 Ensembl899,871,149 - 99,917,232 (-)Ensembl
Rnor_6.0 Ensembl8107,555,277 - 107,602,263 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000142377   ⟹   ENSRNOP00000108610
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8108,750,489 - 108,796,572 (-)Ensembl
RefSeq Acc Id: XM_063266440   ⟹   XP_063122510
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88108,749,761 - 108,796,630 (-)NCBI
RefSeq Acc Id: XM_063266441   ⟹   XP_063122511
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88108,749,761 - 108,796,630 (-)NCBI
RefSeq Acc Id: XM_063266442   ⟹   XP_063122512
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88108,749,761 - 108,762,152 (-)NCBI
RefSeq Acc Id: XM_343454   ⟹   XP_343455
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88108,749,761 - 108,796,630 (-)NCBI
mRatBN7.2899,870,418 - 99,917,298 (-)NCBI
Rnor_6.08107,555,417 - 107,602,414 (-)NCBI
Rnor_5.08106,981,121 - 107,027,963 (-)NCBI
RGSC_v3.48104,171,726 - 104,216,761 (-)RGD
Sequence:
RefSeq Acc Id: XP_343455   ⟸   XM_343454
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000017658   ⟸   ENSRNOT00000017658
RefSeq Acc Id: XP_063122511   ⟸   XM_063266441
- Peptide Label: isoform X3
- UniProtKB: A6I2D3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122510   ⟸   XM_063266440
- Peptide Label: isoform X2
- UniProtKB: A6I2D3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122512   ⟸   XM_063266442
- Peptide Label: isoform X4
Ensembl Acc Id: ENSRNOP00000108610   ⟸   ENSRNOT00000142377
Protein Domains
C2   SMP-LTD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZC04-F1-model_v2 AlphaFold D3ZC04 1-890 view protein structure

Transcriptome

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

Promoters
RGD ID:13696214
Promoter ID:EPDNEW_R6734
Type:multiple initiation site
Name:Esyt3_1
Description:extended synaptotagmin 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_6.08107,602,244 - 107,602,304EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561304 AgrOrtholog
BioCyc Gene G2FUF-29397 BioCyc
Ensembl Genes ENSRNOG00000022704 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017658 ENTREZGENE
  ENSRNOT00000017658.9 UniProtKB/TrEMBL
  ENSRNOT00000142377 ENTREZGENE
  ENSRNOT00000142377.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/TrEMBL
InterPro C2_Ca-dep UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  C2C_KIAA1228 UniProtKB/TrEMBL
  Ext_Synaptotagmin_C2A UniProtKB/TrEMBL
  Ext_Synaptotagmin_C2B UniProtKB/TrEMBL
  Extended_Synaptotagmin UniProtKB/TrEMBL
  SMP_LBD UniProtKB/TrEMBL
  Synaptotagmin_SMP UniProtKB/TrEMBL
KEGG Report rno:363120 UniProtKB/TrEMBL
NCBI Gene 363120 ENTREZGENE
PANTHER EXTENDED SYNAPTOTAGMIN-3 UniProtKB/TrEMBL
  EXTENDED SYNAPTOTAGMIN-LIKE PROTEIN 2, ISOFORM C UniProtKB/TrEMBL
Pfam PF00168 UniProtKB/TrEMBL
  SMP_LBD UniProtKB/TrEMBL
PhenoGen Esyt3 PhenoGen
PRINTS C2DOMAIN UniProtKB/TrEMBL
PROSITE PS50004 UniProtKB/TrEMBL
  SMP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022704 RatGTEx
SMART SM00239 UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/TrEMBL
UniProt A0ABK0M1B4_RAT UniProtKB/TrEMBL
  A6I2D3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZC04 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-22 Esyt3  extended synaptotagmin 3  Esyt3  extended synaptotagmin protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-03-15 Esyt3  extended synaptotagmin protein 3  Esyt3  extended synaptotagmin-like protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-10-22 Esyt3  extended synaptotagmin-like protein 3  Fam62c  family with sequence similarity 62 (C2 domain containing), member C  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Fam62c  family with sequence similarity 62 (C2 domain containing), member C  RGD1561304_predicted  similar to hypothetical protein D930024E11 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1561304_predicted  similar to hypothetical protein D930024E11 (predicted)  LOC363120  similar to hypothetical protein D930024E11  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC363120  similar to hypothetical protein D930024E11      Symbol and Name status set to provisional 70820 PROVISIONAL