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SYNGR4 Gene

protein-coding   GIFtS: 45

GC19P045248
synaptogyrin 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases & Descriptions
synaptogyrin 41 2
MGC1258052
synaptogyrin-42

External Ids:    HGNC: 115021   Entrez Gene: 235462   Ensembl: ENSG000001054677   UniProtKB: O954733   

Export aliases for SYNGR4 gene to outside databases

Previous GC identifers: GC19P049513 GC19P049235 GC19P053543 GC19P053559 GC19P048867


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SYNGR4:
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 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SYNGR4 gene promoter:
         C/EBPalpha   CHOP-10   CUTL1   XBP-1   Pbx1a   E2F-1   E2F   E2F-3a   E2F-4   E2F-5   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for SYNGR4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for SYNGR4 


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19q13.3   Ensembl cytogenetic band:  19q13.33   HGNC cytogenetic band: 19q13.3

SYNGR4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYNGR4 gene location

GeneLoc gene densities for chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P045248:  view genomic region     (about GC identifiers)

Start:
45,248,362 bp from pter
End:
45,260,340 bp from pter
Size:
11,979 bases
Orientation:
plus strand

1 alternative location:
Chr19+ 48,867,657-48,879,627     
RefSeq DNA sequence:
NC_000019.9  NT_011109.16  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: SNG4_HUMAN, O95473 (See protein sequence)
Recommended Name: Synaptogyrin-4  
Size: 234 amino acids; 25820 Da
Subcellular location: Membrane; Multi-pass membrane protein
Secondary accessions: Q3KP58

Explore the universe of human proteins at neXtProt for SYNGR4: NX_O95473 

REFSEQ proteins: NP_036583.2  

ENSEMBL proteins: 
ENSP00000344041 


Human Recombinant Proteins 
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2 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0016020 membrane IEA--
GO:0016021 integral to membrane IEA--
About this table

SYNGR4 for ontologies           About GeneDecksing



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Uscn ELISAs and CLIAs for SYNGR4 


(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

SYNGR4 for domains           About GeneDecksing

3 InterPro domains/families:
 IPR016579 Synaptogyrin
 IPR021128 MARVEL-like_dom
 IPR008253 Marvel

Graphical View of Domain Structure for InterPro Entry O95473

ProtoNet protein and cluster: O95473

1 Blocks protein family: IPB008253 Marvel

UniProtKB/Swiss-Prot: SNG4_HUMAN, O95473
Similarity: Belongs to the synaptogyrin family
Similarity: Contains 1 MARVEL domain


(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

Inhib.
RNA:
    
Browse for Gene Knock-down Tools from Millipore
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Gene
Editing:
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Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
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OriGene GFP tagged cDNA clones in CMV expression vector: SYNGR4
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Cell
Lines:
  
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(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section

    SABiosciences Custom Pathway-Focused PCR Arrays for SYNGR4 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYNGR4

(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 Small Molecules at Sigma-Aldrich
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for SYNGR4


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
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 Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib.
RNA:
     
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich siRNA Panels and esiRNA and siRNA for SYNGR4
Sigma-Aldrich shRNA for SYNGR4
OriGene 29mer shRNA kits in GFP-retroviral vector: SYNGR4
OriGene shRNA RFP: SYNGR4
OriGene basic RS shRNA: SYNGR4
OriGene siRNA: SYNGR4
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of SYNGR4 
miRNA: Sigma-Aldrich microRNA Mimics for SYNGR4
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of SYNGR4 
Search SABiosciences for Assays for microRNAs that regulate SYNGR4
Clones: Browse FLAG tag genes at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector: SYNGR4
OriGene Myc/DDK tagged cDNA clones in CMV expression vector: SYNGR4
OriGene untagged cDNA clones in CMV expression vector: SYNGR4
Browse 3'-UTR reporter clones for miRNA target validation 
Browse OriGene MicroRNA Expression Plasmids 
GenScript cDNA clone with any tag delivered in your preferred vector: SYNGR4 
Primers: OriGene genome-wide validated SYBR primer pairs: SYNGR4
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for SYNGR4: PPH19402A

REFSEQ mRNAs for SYNGR4 gene: 

NM_012451.3  

Additional cDNA sequence: 

AJ011733.1 BC106891.2 

1 DOTS entry:

DT.206820 

23 AceView cDNA sequences:

AI081072 AI222412 AA953389 NM_012451 BM797584 BV176232 BF508220 BM792897 
AJ011733 BM854750 AI582272 AI032366 AI214645 AA835071 AA719355 BG219279 
AA551879 AI214923 BG720827 AA442228 AA442893 AA971366 AW662802 

highest scoring ESTs for SYNGR4:

AJ011733 AA442893 AA551879 AA719355 AA835071 AA953389 AI081072 AI214645 AI214923 AI222412 

Unigene Cluster for SYNGR4:

Synaptogyrin 4
Hs.408333  [show with all ESTs]
Unigene Representative Sequence: NM_012451


GeneLoc Exon Structure

5 Alternative Splicing Database (ASD) splice patterns (SP) for SYNGR4

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b
SP1:                                                                  
SP2:              -     -                                             
SP3:              -     -                             -               
SP4:                    -                                             
SP5:                                -     -     -     -               

About this scheme

ECgene alternative splicing isoforms for SYNGR4
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000344846(uc002piz.2)

(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 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

SYNGR4 expression in normal and diseased human tissues

1  / 2  / 3

3 probe-sets matching SYNGR4 gene

Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
34495_r_at2, 3 U95-A 1 0.69 1.00 1.00 1.00 AJ011733 1.00 1.00 1.00 1
206719_at2, 3 U133-A 1 0.73 1.00 -- -- NM_012451 0.60 1.00 0.82 1
206719_at2 U133Plus2 1 0.73 1.00 -- -- -- -- -- -- --
About this table

SYNGR4 for expression           About GeneDecksing

Data from Genenote  (Publications) and GNF BioGPS
    About these images
SYNGR4 gene expression
SYNGR4 gene electronic northern expression
SYNGR4 gene sage expression
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.408333

Expression variation in blood from EXPOLDB for SYNGR4

Primers: OriGene genome-wide validated SYBR primer pairs: SYNGR4
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for SYNGR4: PPH19402A
    SABiosciences Custom PCR Arrays for SYNGR4 


(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for SYNGR4 gene from 5 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
SYNGR41   -- synaptogyrin 4 78.72(n)
70.09(a)
612063  XM_849790.1  XP_854883.1 
chimpanzee
(Pan troglodytes)
SYNGR41   -- synaptogyrin 4 98.47(n)
97.45(a)
746727  XM_001154702.1  XP_001154702.1 
cow
(Bos taurus)
SYNGR41   -- synaptogyrin 4 83.33(n)
77.78(a)
538683  NM_001046436.1  NP_001039901.1 
rat
(Rattus norvegicus)
Syngr41   -- synaptogyrin 4 80.2(n)
73.93(a)
292916  NM_001025644.1  NP_001020815.1 
mouse
(Mus musculus)
Syngr41 , 5 7 (29.58 cM)5
synaptogyrin 41, 5 79.97(n)1
73.39(a)1
588671  NM_021482.21  NP_067457.21 
 AJ0117345  AK0060505  (see all 7)
About this table        Species with no ortholog for SYNGR4

ENSEMBL Gene Tree for SYNGR4 (if available)

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
Paralogs for SYNGR4 gene
SYNGR2P12  SYNGR12  SYNGR32  SYNGR22  

SYNGR4 for paralogs           About GeneDecksing



(SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section

Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 3 variations for SYNGR4
     3 CNVs: 47965 5106 32261
QIAGEN SeqTarget long-range PCR primers for resequencing SYNGR4 

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

SYNGR4 for disorders           About GeneDecksing

OMIM: 608373


Export disorders and mutations for SYNGR4 gene to outside databases

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

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

5 PubMed articles for SYNGR4 gene integrated from 7 sources:
(articles sorted by number of sources associating them with SYNGR4)
  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
  2. 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)
  3. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
  4. A transcript map of the chromosome 19q-Arm glioma tumor suppressor region. (PubMed id 10708517)1 Smith J.S.... Jenkins R.B. (2000)
  5. Characterization of the human synaptogyrin gene family. (PubMed id 9760194)1 Kedra D....Dumanski J.P. (1998)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
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, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 23546 HGNC: 11502 AceView: SYNGR4 Ensembl:ENSG00000105467 euGenes: HUgn23546
ECgene: SYNGR4 H-InvDB: SYNGR4

(According to HUGE)
About This Section
  --

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from XenneX, Inc.)
About This Section
Patent Information for SYNGR4 gene:
Search GeneIP for patents involving SYNGR4

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
About This Section

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