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SYNGR3 Gene

protein-coding GIFtS: 56

GC16P001979

synaptogyrin 3
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases
MGC:20003 ^²

Descriptions
synaptogyrin 3 ^²

External Ids
HGNC: 11501¹
Entrez Gene: 9143²
UniProtKB: O43761³
Ensembl: ENSG00000127561⁷

Search outside databases for aliases for SYNGR3 gene

Previous GC identifers: GC16P002057 GC16P002067

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for SYNGR3:

This gene encodes an integral membrane protein. The gene belongs to the synaptogyrin gene family.

Like other members of the family the protein contains four transmembrane regions. The exact

function of this protein is unclear. [provided by RefSeq]

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the SYNGR3 gene

Entrez Gene cytogenetic band: 16p13 Ensembl cytogenetic band: 16p13.3 HGNC cytogenetic band: 16p13.3

SYNGR3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 16 GeneLoc Exon Structure

GeneLoc location for GC16P001979: (about GC identifiers)

Start:	1,979,969 bp from pter
End:	1,984,277 bp from pter
Size:	4,309 bases
Orientation:	plus strand

RefSeq DNA sequence:

NC_000016.8 NT_037887.4

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761 (See protein sequence)

Recommended Name: Synaptogyrin-3

Size: 229 amino acids; 24555 Da

Subcellular location: Membrane; Multi-pass membrane protein

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_004200.2

ENSEMBL proteins:

ENSP00000248121 ENSP00000325171

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (Synaptogyrin 3)
	Human Recombinant Proteins from Abnova (SYNGR3)

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005887	integral to plasma membrane	TAS	9760194
GO:0016020	membrane	IEA	--

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Antibodies for SYNGR3:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	Antibodies from Abcam (Synaptogyrin 3), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (SYNGR3)
	Novus Biologicals Antibody for SYNGR3

Assays for SYNGR3:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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Graphical View of Domain Structure for InterPro Entry O43761

ProtoNet protein and cluster: O43761

1 Blocks protein family: IPB008253 Marvel

UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761

Similarity: Belongs to the synaptogyrin family

Similarity: Contains 1 MARVEL domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (SYNGR3)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004209

Applied Biosystems Silencer® siRNAs for SYNGR3

Sigma-Aldrich siRNA and siRNA Panels for SYNGR3

Sigma-Aldrich shRNA for SYNGR3

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_004209
Myc/DDK tagged cDNA clone in CMV expression vector: NM_004209
untagged cDNA clone in CMV expression vector: NM_004209

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_004209

Genatlas biochemistry entry for SYNGR3:

synaptogyrin 3,putative vesicle protein,expressed in brain and placenta

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for SYNGR3

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (SYNGR3)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004209

Sigma-Aldrich siRNA and siRNA Panels for SYNGR3

Sigma-Aldrich shRNA for SYNGR3

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_004209

REFSEQ mRNAs for SYNGR3 gene:

NM_004209.4

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_004209

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_004209
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_004209
                                 untagged cDNA clone in CMV expression vector: NM_004209

Additional cDNA sequence:

AJ002309.2 AK313894.1 BC009568.1 BC014087.2 CR597024.1 CR599198.1 CR604382.1 CR608497.1

CR616926.1 CR617644.1 CR619180.1

6 DOTS entries:

DT.451192 DT.95375448 DT.97841592 DT.97841593 DT.100668939 DT.99969521

24/95 AceView cDNA sequences (see all 95 ):

AA989308 CR616926 CR604382 BU736398 BC009568 BC014087 BM692390 BM695771

NM_004209 CR608497 AA878765 CR597024 H20514 AL534611 AA825164 AL535288

BG702119 BM695960 CR619180 CR617644 CR599198 AA776642 AJ002309 BM927051

highest scoring ESTs for SYNGR3:

AJ002309 AA776642 AA825164 AA878765 AA890072 AA989308 AL530193 AW104966 AW291363 BC014087

Unigene Cluster for SYNGR3:

Synaptogyrin 3

Hs.435277 [show with all ESTs]

Unigene Representative Sequence: NM_004209

GeneLoc Exon Structure

5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SYNGR3 (see all 6 )

ExUns:	1	^	2a	·	2b	·	2c	^	3	^	4a	·	4b	·	4c	^	5a	·	5b	^	6	^	7a	·	7b	·	7c
SP1:			-		-		-		-		-						-
SP2:									-		-						-
SP3:									-		-						-		-
SP4:											-
SP5:																	-

About this scheme

ECgene alternative splicing isoforms for SYNGR3

2 Ensembl transcripts including schematic representations:

ENST00000248121 ENST00000320633

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
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SYNGR3 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for SYNGR3

¹ / ² / ³

3 probe-sets matching SYNGR3 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
40314_at²^{, 3}	U95-A	1	1.00	1.00	1.00	1.00	AJ002309	1.00	1.00	1.00	1
205691_at²^{, 3}	U133-A	1	1.00	1.00	--	--	NM_004209	0.60	1.00	0.82	1
205691_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

GeneDecks SYNGR3 for binary patterns associated with the probe-sets selected above

About GeneDecksing

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: TTCCGACTGC

SOURCE GeneReport for Unigene cluster: Hs.435277
Expression variation in blood from EXPOLDB for SYNGR3
UniProtKB/Swiss-Prot: SNG3_HUMAN, O43761
Tissue specificity: Expressed in brain and placenta

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
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Orthologs for SYNGR3 gene from 5/8 species (see all 8 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	SYNGR3¹	--	synaptogyrin 3	93.2(n) 97.45(a)	490062 XM_547182.2 XP_547182.2
chimpanzee (Pan troglodytes)	SYNGR3¹	--	synaptogyrin 3	94.18(n) 92.06(a)	468089 XM_523480.2 XP_523480.2
cow (Bos taurus)	SYNGR3¹	--	synaptogyrin 3	90.98(n) 94.32(a)	618415 XM_870745.2 XP_875838.1
rat (Rattus norvegicus)	Syngr3¹	--	synaptogyrin 3	86.32(n) 94.32(a)	302975 XM_220220.4 XP_220220.3
mouse (Mus musculus)	Syngr3^{1, 5}	17⁵	synaptogyrin 3^{1, 5}	86.17(n)¹ 93.89(a)¹	20974¹ NM_011522.3¹ NP_035652.2¹ AF117207⁵ AK048753⁵ (see all 12)

About this table Species with no ortholog for SYNGR3

ENSEMBL Gene Tree for SYNGR3

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
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Paralogs for SYNGR3 gene

SYNGR4² SYNGR1² SYNGR2²

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/21 NCBI SNPs in SYNGR3 are shown (see all 21 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 55)

AB	SNP ID	Valid	Chr 16 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs2283476^1,2	C,F,H	1979309(+)	`CCCTGC/TCCTCC`	1	--	ng5¹		5		EA EU WA	1718
	rs3743848^1,2	H	1983981(-)	`ATGCAG/AAGGGA`	1	--	ut3¹ ese³		5		EA EU WA	1908
	rs3183175^1,2	F	1983819(+)	`CCAGGC/AAAGAC`	1	--	ut3¹ ese³		1		MN	184
--	rs9972634^1,2	C	1984638(+)	`acaggC/Tgcccg`	1	--	ng3¹		0	--	--	--	--
	rs2283477^1,2	C	1979330(+)	`AGGCGC/GCGCAA`	1	--	ng5¹		0	--	--	--	--
	rs7190048^1,2	A,C,F,H	1981493(+)	`GCCGTT/GCCGGC`	1	--	int¹		4		EU EA WA	418
--	rs28410443^1,2	--	1978485(+)	`AGCCCC/GTGAGG`	1	--	ng5¹		0	--	--	--	--
--	rs72766621^1,2	--	1978514(+)	`AAGATC/TGCGCC`	1	--	ng5¹		0	--	--	--	--
	rs28452667^1,2	--	1978582(+)	`CTAAAG/TAAATA`	1	--	ng5¹ tfbs³		0	--	--	--	--
	rs28537620^1,2	--	1983093(+)	`CAGACC/GAGGGC`	1	--	ut3¹ ese³		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for SYNGR3 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 603927

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
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3 PubMed articles for SYNGR3 gene:

Characterization of the human synaptogyrin gene family. (PubMed id 9760194)^{1, 2, 3, 4} 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)^{3, 4} Gerhard D.S....Malek J. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)³ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 9143	HGNC: 11501	AceView: SYNGR3	Ensembl:ENSG00000127561	euGenes: HUgn9143
ECgene: SYNGR3	H-InvDB: SYNGR3

(According to HUGE)
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(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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Licensable Technologies for SYNGR3
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
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Products for SYNGR3:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for SYNGR3-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for SYNGR3		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for SYNGR3		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

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	Antibodies (Synaptogyrin 3)

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Search Tocris compounds for SYNGR3

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SYNGR3 Gene

protein-coding GIFtS: 56

Aliases &
Descriptions
for SYNGR3

Summaries
for SYNGR3

Genomic Location
for SYNGR3

Proteins
for SYNGR3

Protein Domains/
Families
for SYNGR3

Gene Function
for SYNGR3

Pathways & Interactions
for SYNGR3

Drugs & Compounds
for SYNGR3

Transcripts
for SYNGR3

Expression
for SYNGR3

Orthologs
for SYNGR3

Paralogs
for SYNGR3

SNPs/Variants
for SYNGR3

Disorders & Mutations
for SYNGR3

Medical News
for SYNGR3

Publications
for SYNGR3

Search for SYNGR3

Genome Databases showing SYNGR3

Other Databases showing SYNGR3

Specialized Databases showing SYNGR3

Licensable Technologies
for SYNGR3

Services
for SYNGR3

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

SYNGR3 Gene

protein-coding GIFtS: 56

Aliases & Descriptionsfor SYNGR3

Summariesfor SYNGR3

Genomic Locationfor SYNGR3

Proteinsfor SYNGR3

Protein Domains/Familiesfor SYNGR3

Gene Functionfor SYNGR3

Pathways & Interactionsfor SYNGR3

Drugs & Compoundsfor SYNGR3

Transcriptsfor SYNGR3

Expression for SYNGR3

Orthologsfor SYNGR3

Paralogsfor SYNGR3

SNPs/Variantsfor SYNGR3

Disorders & Mutationsfor SYNGR3

Medical Newsfor SYNGR3

Publicationsfor SYNGR3

Search for SYNGR3

Genome Databases showing SYNGR3

Other Databases showing SYNGR3

Specialized Databases showing SYNGR3

Licensable Technologiesfor SYNGR3

Servicesfor SYNGR3

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for SYNGR3

Summaries
for SYNGR3

Genomic Location
for SYNGR3

Proteins
for SYNGR3

Protein Domains/
Families
for SYNGR3

Gene Function
for SYNGR3

Pathways & Interactions
for SYNGR3

Drugs & Compounds
for SYNGR3

Transcripts
for SYNGR3

Expression
for SYNGR3

Orthologs
for SYNGR3

Paralogs
for SYNGR3

SNPs/Variants
for SYNGR3

Disorders & Mutations
for SYNGR3

Medical News
for SYNGR3

Publications
for SYNGR3

Licensable Technologies
for SYNGR3

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