Syt4 (synaptotagmin IV) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Syt4 (synaptotagmin IV) Mus musculus
Analyze
Symbol: Syt4
Name: synaptotagmin IV
RGD ID: 68583
MGI Page MGI
Description: Exhibits calcium ion binding activity and calcium-dependent phospholipid binding activity. Involved in several processes, including regulation of secretion by cell; regulation of trans-synaptic signaling; and trans-synaptic signaling. Localizes to several cellular components, including astrocyte projection; integral component of neuronal dense core vesicle membrane; and microvesicle. Is expressed in several structures, including alimentary system; limb; nervous system; respiratory system; and sensory organ. Orthologous to human SYT4 (synaptotagmin 4).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: synaptotagmin 4; synaptotagmin-4; SytIV
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391831,570,861 - 31,580,468 (-)NCBIGRCm39mm39
GRCm39 Ensembl1831,570,861 - 31,580,459 (-)Ensembl
GRCm381831,437,808 - 31,447,415 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1831,437,808 - 31,447,406 (-)EnsemblGRCm38mm10GRCm38
MGSCv371831,597,462 - 31,607,069 (-)NCBIGRCm37mm9NCBIm37
MGSCv361831,580,818 - 31,590,425 (-)NCBImm8
Celera1831,923,439 - 31,933,127 (-)NCBICelera
Cytogenetic Map18B1NCBI
cM Map1817.75NCBI
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

Biological Process

References

Additional References at PubMed
PMID:1495973   PMID:2132728   PMID:2333096   PMID:7892240   PMID:8058779   PMID:8626542   PMID:8653788   PMID:8747928   PMID:8889548   PMID:9914469   PMID:10087208   PMID:10087302  
PMID:10349636   PMID:10531343   PMID:10792055   PMID:10938284   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12135783   PMID:12477932   PMID:14681479   PMID:14691545   PMID:14973295  
PMID:15197251   PMID:15380377   PMID:15390175   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16602821   PMID:18468511   PMID:19136969   PMID:19448629   PMID:20010821  
PMID:20138128   PMID:21315262   PMID:21536733   PMID:21576241   PMID:21873635   PMID:22241837   PMID:22514304   PMID:25135772   PMID:25196998   PMID:27631609   PMID:28254618   PMID:29166604  
PMID:29656931   PMID:29925374   PMID:30333037   PMID:31743468   PMID:32325033   PMID:33238113  


Genomics

Comparative Map Data
Syt4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391831,570,861 - 31,580,468 (-)NCBIGRCm39mm39
GRCm39 Ensembl1831,570,861 - 31,580,459 (-)Ensembl
GRCm381831,437,808 - 31,447,415 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1831,437,808 - 31,447,406 (-)EnsemblGRCm38mm10GRCm38
MGSCv371831,597,462 - 31,607,069 (-)NCBIGRCm37mm9NCBIm37
MGSCv361831,580,818 - 31,590,425 (-)NCBImm8
Celera1831,923,439 - 31,933,127 (-)NCBICelera
Cytogenetic Map18B1NCBI
cM Map1817.75NCBI
SYT4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1843,267,892 - 43,277,535 (-)EnsemblGRCh38hg38GRCh38
GRCh381843,267,892 - 43,277,490 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371840,847,857 - 40,857,455 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361839,101,855 - 39,111,342 (-)NCBINCBI36hg18NCBI36
Build 341839,101,856 - 39,111,342NCBI
Celera1837,656,042 - 37,665,799 (-)NCBI
Cytogenetic Map18q12.3NCBI
HuRef1837,706,367 - 37,716,125 (-)NCBIHuRef
CHM1_11840,774,888 - 40,784,646 (-)NCBICHM1_1
Syt4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21823,036,973 - 23,046,380 (-)NCBI
Rnor_6.0 Ensembl1824,172,587 - 24,182,012 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01824,172,580 - 24,181,989 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01823,893,019 - 23,902,428 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41823,805,080 - 23,814,489 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11823,833,130 - 23,841,087 (-)NCBI
Celera1822,798,742 - 22,808,151 (-)NCBICelera
Cytogenetic Map18p12NCBI
Syt4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540229,193,455 - 29,204,975 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540229,195,124 - 29,204,816 (-)NCBIChiLan1.0ChiLan1.0
SYT4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11840,089,938 - 40,099,721 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1840,089,938 - 40,099,721 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01836,540,756 - 36,550,439 (-)NCBIMhudiblu_PPA_v0panPan3
SYT4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1747,555,110 - 47,565,313 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl747,509,852 - 47,563,714 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha746,971,902 - 46,982,069 (+)NCBI
ROS_Cfam_1.0747,511,288 - 47,521,437 (+)NCBI
UMICH_Zoey_3.1747,213,662 - 47,223,814 (+)NCBI
UNSW_CanFamBas_1.0747,249,749 - 47,259,895 (+)NCBI
UU_Cfam_GSD_1.0747,539,197 - 47,549,385 (+)NCBI
Syt4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494443,708,440 - 43,718,775 (+)NCBI
SpeTri2.0NW_0049365173,035,840 - 3,044,065 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYT4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6127,382,260 - 127,392,167 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16127,382,248 - 127,392,258 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SYT4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11837,595,187 - 37,604,931 (+)NCBI
ChlSab1.1 Ensembl1837,595,035 - 37,606,007 (+)Ensembl
Vero_WHO_p1.0NW_02366605012,024,554 - 12,034,291 (+)NCBI
Syt4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477917,593,760 - 17,603,217 (-)NCBI

Position Markers
Syt4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371831,599,094 - 31,599,525UniSTSGRCm37
Celera1831,925,071 - 31,925,502UniSTS
Cytogenetic Map18B1UniSTS
cM Map1810.0UniSTS
cM Map1810.0UniSTS
U10355  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381831,439,961 - 31,440,103UniSTSGRCm38
MGSCv371831,599,615 - 31,599,757UniSTSGRCm37
Celera1831,925,592 - 31,925,734UniSTS
Cytogenetic Map18B1UniSTS
cM Map1810.0UniSTS
Whitehead/MRC_RH18475.29UniSTS
UniSTS:237759  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381831,437,855 - 31,438,060UniSTSGRCm38
MGSCv371831,597,509 - 31,597,714UniSTSGRCm37
Celera1831,923,486 - 31,923,691UniSTS
Cytogenetic Map18B1UniSTS
cM Map1810.0UniSTS
UniSTS:224647  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381831,439,912 - 31,440,106UniSTSGRCm38
MGSCv371831,599,566 - 31,599,760UniSTSGRCm37
Celera1831,925,543 - 31,925,737UniSTS
Cytogenetic Map18B1UniSTS
cM Map1810.0UniSTS
Syt4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381831,439,440 - 31,439,871UniSTSGRCm38
MGSCv371831,599,094 - 31,599,525UniSTSGRCm37
Celera1831,925,071 - 31,925,502UniSTS
Cytogenetic Map18B1UniSTS
cM Map1810.0UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12801458Intmrm3_mintima/media ratio modifier 3 (mouse)18131587699Mouse
12801462Intim3_mintima modifier 3 (mouse)18131587699Mouse
13207585Mwmlpt3_mMorris water maze latency to platform, training, 3 (mouse)18133414682Mouse
13207589Mwmlpa3_mMorris water maze latency to platform, all, 3 (mouse)18133414682Mouse
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060800000Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961139571Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18795390741954049Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181350407347504073Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181389696666965891Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181606658750066723Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181800665152006806Mouse
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181888582152885939Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181888582152885939Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182082063757457636Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182108452755084674Mouse
1301950Otx2m1_morthodenticle homolog 2 (Drosophila) modifier 1 (mouse)Not determined182143562536054687Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182248686156487074Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182248686156487074Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182248686156487074Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182248686156487074Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182248686156487074Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182398250757982677Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182476282478296340Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182592381059923810Mouse
25823167Hrsq5_mhost response to SARS QTL 5, D3% weight (mouse)182710806258694005Mouse
25823171Hrsq10_mhost response to SARS QTL 10, D4% weight (mouse)182710806258694005Mouse
25823174Hrsq11_mhost response to SARS QTL 11, log titer (mouse)182710806258694005Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182797631361976451Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2799753761997672Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182953484763534993Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183010000064100000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:824
Count of miRNA genes:454
Interacting mature miRNAs:563
Transcripts:ENSMUST00000025110
Prediction methods: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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000025110   ⟹   ENSMUSP00000025110
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1831,437,808 - 31,447,406 (-)Ensembl
RefSeq Acc Id: NM_009308   ⟹   NP_033334
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391831,570,861 - 31,580,468 (-)NCBI
GRCm381831,437,808 - 31,447,415 (-)ENTREZGENE
MGSCv371831,597,462 - 31,607,069 (-)RGD
Celera1831,923,439 - 31,933,127 (-)RGD
cM Map18 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017317852   ⟹   XP_017173341
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391831,571,211 - 31,579,854 (-)NCBI
GRCm381831,438,158 - 31,446,785 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_033334   ⟸   NM_009308
- UniProtKB: P40749 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017173341   ⟸   XM_017317852
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000025110   ⟸   ENSMUST00000025110
Protein Domains
C2

Promoters
RGD ID:13677288
Promoter ID:EPDNEW_M22793
Type:initiation region
Name:Syt4_1
Description:Mus musculus synaptotagmin IV , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381831,447,356 - 31,447,416EPDNEW
RGD ID:6829571
Promoter ID:MM_KWN:24823
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:NM_009308
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361831,606,741 - 31,607,241 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:101759 AgrOrtholog
Ensembl Genes ENSMUSG00000024261 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000025110 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000025110 ENTREZGENE, 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
  SYT4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20983 UniProtKB/Swiss-Prot
MGD MGI:101759 ENTREZGENE
NCBI Gene 20983 ENTREZGENE
PANTHER PTHR10024:SF114 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Syt4 PhenoGen
PRINTS SYNAPTOTAGMN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P40749 ENTREZGENE
  Q571C5_MOUSE UniProtKB/TrEMBL
  SYT4_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q3UFC1 UniProtKB/Swiss-Prot
  Q8BGH3 UniProtKB/Swiss-Prot
  Q8BRL6 UniProtKB/Swiss-Prot