SYNGR3 Gene
protein-coding GIFtS: 51
GCID: GC16P002084
|
|
synaptogyrin 3
| |
Aliases
for SYNGR3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Synaptogyrin 31 2 | | Synaptogyrin-31 |
Export aliases for SYNGR3 gene to outside databasesPrevious GC identifers: GC16P002057 GC16P002067 GC16P001979 GC16P002040 GC16P001966 GC16P002044 GC16P002046 GC16P002050 GC16P002060 |
Summaries
for SYNGR3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SYNGR3:
This gene encodes an integral membrane protein. The exact function of this protein is unclear, but studies of a similarmurine protein suggest that it is a synaptic vesicle protein that also interacts with the dopamine transporter. Thegene product belongs to the synaptogyrin gene family. (provided by RefSeq, Dec 2010)
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761Function: Involved in the positive regulation of dopamine transporter activity. Probably facilitates the physical andfunctional interactions of the transporter with the dopamine vesicular storage system, allowing a more efficientloading of the vesicles with extracellular dopamine after release (By similarity)
|
Genomic Views
for SYNGR3 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000016.9 NC_018927.1 NT_010393.16
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SYNGR3 gene promoter:
ER-alpha AREB6 p53 ATF-2 c-Jun
Other transcription factors
Search SABiosciences Chromatin IP Primers for SYNGR3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYNGR3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 16p13 Ensembl cytogenetic band: 16p13.3 HGNC cytogenetic band: 16p13.3SYNGR3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 16 GeneLoc Exon Structure GeneLoc location for GC16P002084: view genomic region
(about GC identifiers)
Start:
|
2,039,661 bp from pter |
End:
|
2,044,276 bp from pter |
Size:
|
4,616 bases |
Orientation:
|
plus strand |
|
Proteins
for SYNGR3 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761 (See
protein sequence)Recommended Name: Synaptogyrin-3 Size: 229 amino acids; 24555 Da
Subunit: Interacts (via N-terminus) with SLC6A3 (via N-terminus) (By similarity)
Subcellular location: Membrane; Multi-pass membrane protein. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle(By similarity). Cell junction, synapse. Note=Found at the neuromuscular synapses (By similarity)
Secondary accessions: B2R9S0Explore the universe of human proteins at neXtProt for SYNGR3: NX_O43761
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_O43761
SYNGR3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_004200.2
ENSEMBL proteins: ENSP00000455344 ENSP00000248121 ENSP00000455140 ENSP00000454756 ENSP00000455577
Human Recombinant Protein Products:
Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6): About this table
SYNGR3 for ontologies About GeneDecksing
SYNGR3 Antibody Products:
Assay Products for SYNGR3: |
Protein
Domains /
Families
for SYNGR3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SYNGR3 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry O43761ProtoNet protein and cluster: O43761 1 Blocks protein family: IPB008253 Marvel
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761Similarity: Belongs to the synaptogyrin familySimilarity: Contains 1 MARVEL domain |
Function
for SYNGR3 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761Function: Involved in the positive regulation of dopamine transporter activity. Probably facilitates the physical andfunctional interactions of the transporter with the dopamine vesicular storage system, allowing a more efficientloading of the vesicles with extracellular dopamine after release (By similarity) Genatlas biochemistry entry for SYNGR3:synaptogyrin 3,putative vesicle protein,expressed in brain and placenta
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SYNGR3
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYNGR3 |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table
SYNGR3 for ontologies About GeneDecksing
Animal Models:
Mouse knock-out Syngr3tm1Sud for SYNGR3
1 MGI mutant phenotype (inferred from 1 allele ) (MGI details for Syngr3):
SYNGR3 for phenotypes About GeneDecksing
|
Pathways & Interactions
for SYNGR3 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYNGR3
1 Interacting protein for SYNGR3 (O437613) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0032411 | positive regulation of transporter activity |
ISS | -- |
SYNGR3 for ontologies About GeneDecksing
|
Drugs & Compounds
for SYNGR3 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SYNGR3
Search CenterWatch for drugs/clinical trials and news about SYNGR3 / SNG3
|
Transcripts
for SYNGR3 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SYNGR3 gene: NM_004209.5 Unigene Cluster for SYNGR3: Synaptogyrin 3 Hs.435277 [show with all ESTs]Unigene Representative Sequence: NM_0042096 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000563869 ENST00000248121(uc002cod.3) ENST00000562088 ENST00000568896
ENST00000562045 ENST00000564642
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SYNGR3 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SYNGR3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SYNGR3 (NM_004209) | | | DNA2.0 Custom Codon Optimized Gene
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Additional cDNA sequence: AJ002309.2 AK313894.1 BC009568.1 BC014087.2 6 DOTS entries: DT.451192 DT.95375448 DT.97841592 DT.97841593 DT.100668939 DT.99969521 24/95 AceView cDNA sequences (see all 95): AA825164 AL535288 CR616926 H20514 CR599198 AA776642 AA878765 CR597024 CR608497 BU736398 BM695771 AA989308 AL534611 BM692390 BM695960 CR619180 CR617644 BC014087 CR604382 NM_004209 BC009568 AJ002309 BG702119 BI551738
GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SYNGR3 (see all 6) About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | · | 2c | ^ | 3 | ^ | 4a | · | 4b | · | 4c | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b | · | 7c |
|---|
|
| SP1: | | | - | | - | | - | | - | | - | | | | | | - | | | | | | | | | | | | |
| SP2: | | | | | | | | | - | | - | | | | | | - | | | | | | | | | | | | |
| SP3: | | | | | | | | | - | | - | | | | | | - | | - | | | | | | | | | | |
| SP4: | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | - | | | | | | | | | | | |
ECgene alternative splicing isoforms for SYNGR3
|
Expression
for SYNGR3 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SYNGR3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTCCGACTGC
About this image
See SYNGR3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SYNGR3
SOURCE GeneReport for Unigene cluster: Hs.435277
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761Tissue specificity: Expressed in brain and placenta
SABiosciences Expression via Pathway-Focused PCR Array including SYNGR3:
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SYNGR3
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYNGR3 |
Orthologs
for SYNGR3 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of animals.
Orthologs for SYNGR3 gene from 5/17 species (see all 17) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
SYNGR31 |
synaptogyrin 3 |
71.32(n)
69.43(a) |
|
416548 NM_001007834.1 NP_001007835.1 |
lizard
(Anolis carolinensis) |
Reptilia |
SYNGR36 |
-- |
73(a) |
1 → many |
GL343650.1(108822-113108) |
zebrafish
(Danio rerio) |
Actinopterygii |
syngr3a1 |
synaptogyrin 3a |
63.86(n)
60.18(a) |
|
553617 NM_001020591.1 NP_001018427.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
synaptogyrin3 |
regulation of calcium ion dependent
exocytosis |
38(a) |
|
50C6 -- |
worm
(Caenorhabditis elegans) |
Secernentea |
sng-16 |
Synaptogyrin homolog 1 |
22(a) |
1 → many |
X(7327559-7329631) |
ENSEMBL Gene Tree for SYNGR3 (if available)
TreeFam Gene Tree for SYNGR3 (if available) |
Paralogs
for SYNGR3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SYNGR3 gene
- SYNGR42 SYNGR12 SYNGR22
3 SIMAP similar genes for SYNGR3 using alignment to 5 protein entries: SNG3_HUMAN (see all proteins):SYNGR1 SYNGR2 SYNGR4
SYNGR3 for paralogs About GeneDecksing
|
Genomic Variants
for SYNGR3 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 16 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SYNGR3 (2039661 - 2044276 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 5 variations for SYNGR3
5 CNVs: 53306 29657 5329 30001 29656 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SYNGR3 |
|
Disorders
/ Diseases
for SYNGR3 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SYNGR3 for disorders About GeneDecksing
OMIM gene information: 603927
OMIM disorders: --
6  diseases for SYNGR3: About MalaCardsoxyphilic adenoma renal oncocytoma parkinson's disease breast cancer
adenoma neuronitis
1 disease from the University of Copenhagen DISEASES database for SYNGR3:Renal oncocytoma Export disorders for SYNGR3 gene to outside databases
|
Publications
for SYNGR3 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SYNGR3 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SYNGR3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Characterization of the human synaptogyrin gene family. (PubMed id 9760194)1, 2, 3, 9 Kedra D....Dumanski J.P. (1998)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Identification of genes associated with chemosensitiv ity to SAHA/taxane combination treatment in taxane-resistant breast cancer cell s. (PubMed id 20224928)1 Chang H....Chung H.C. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Physical and functional interaction between the dopam ine transporter and the synaptic vesicle protein synaptogyrin-3. (PubMed id 19357284)1 EgaA+a L.A....Torres G.E. (2009)
- Characterization of synaptogyrin 3 as a new synaptic vesicle protein. (PubMed id 14755516)1 Belizaire R....Janz R. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for SYNGR3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SYNGR3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SYNGR3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SYNGR3 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SYNGR3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SYNGR3 gene:
Search GeneIP for patents involving SYNGR3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SYNGR3 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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