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Aliases for SYDE2 Gene

Aliases for SYDE2 Gene

  • Synapse Defective Rho GTPase Homolog 2 2 3 5
  • Synapse Defective 1, Rho GTPase, Homolog 2 (C. Elegans) 2
  • Synapse Defective Protein 1 Homolog 2 4
  • Protein Syd-1 Homolog 2 4

External Ids for SYDE2 Gene

Previous GeneCards Identifiers for SYDE2 Gene

  • GC01M085338
  • GC01M085623
  • GC01M083733

Summaries for SYDE2 Gene

GeneCards Summary for SYDE2 Gene

SYDE2 (Synapse Defective Rho GTPase Homolog 2) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and p75 NTR receptor-mediated signalling. GO annotations related to this gene include GTPase activator activity. An important paralog of this gene is SYDE1.

UniProtKB/Swiss-Prot for SYDE2 Gene

  • GTPase activator for the Rho-type GTPases by converting them to an inactive GDP-bound state.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYDE2 Gene

Genomics for SYDE2 Gene

Regulatory Elements for SYDE2 Gene

Enhancers for SYDE2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G085224 1.6 Ensembl ENCODE dbSUPER 8.5 -23.7 -23744 2.2 PKNOX1 CREB3L1 ARNT FEZF1 ZBTB7B REST ZNF592 MEF2D ZNF610 SMARCA4 SYDE2 LOC105378821
GH01G085229 1 ENCODE dbSUPER 11.9 -28.2 -28249 0.2 PKNOX1 ZNF362 SAP130 SP5 ZNF384 ELF1 ZNF2 OSR2 RAD51 ZNF610 SYDE2 LOC105378821 C1orf52
GH01G085134 1 Ensembl ENCODE 11.3 +66.4 66438 2.3 FOXA2 ZNF473 CEBPG ZNF23 GATA3 ZNF366 SCRT2 EZH2 GATAD2A RFX1 SYDE2 WDR63 MCOLN2 GC01M085136 MIR4423
GH01G085148 0.5 FANTOM5 12.2 +53.0 52992 0.1 MTA2 SP7 SYDE2 ENSG00000280099 GC01M085136
GH01G085091 0.5 Ensembl 10.9 +109.8 109804 0.6 ETV6 ZBTB40 GABPA MCOLN3 SYDE2 WDR63 MIR4423
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYDE2 on UCSC Golden Path with GeneCards custom track

Promoters for SYDE2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000009186 1103 3600 PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF143 KLF13 ZNF263 SP3

Genomic Location for SYDE2 Gene

Chromosome:
1
Start:
85,156,873 bp from pter
End:
85,201,704 bp from pter
Size:
44,832 bases
Orientation:
Minus strand

Genomic View for SYDE2 Gene

Genes around SYDE2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYDE2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYDE2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYDE2 Gene

Proteins for SYDE2 Gene

  • Protein details for SYDE2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5VT97-SYDE2_HUMAN
    Recommended name:
    Rho GTPase-activating protein SYDE2
    Protein Accession:
    Q5VT97
    Secondary Accessions:
    • Q5VT96
    • Q8NDB8
    • Q9H8A6

    Protein attributes for SYDE2 Gene

    Size:
    1194 amino acids
    Molecular mass:
    133230 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB14711.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB14711.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305}; Sequence=CAH72669.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAH72670.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for SYDE2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYDE2 Gene

Post-translational modifications for SYDE2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYDE2 Gene

No data available for DME Specific Peptides for SYDE2 Gene

Domains & Families for SYDE2 Gene

Gene Families for SYDE2 Gene

Protein Domains for SYDE2 Gene

Suggested Antigen Peptide Sequences for SYDE2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SYDE2: view

No data available for UniProtKB/Swiss-Prot for SYDE2 Gene

Function for SYDE2 Gene

Molecular function for SYDE2 Gene

UniProtKB/Swiss-Prot Function:
GTPase activator for the Rho-type GTPases by converting them to an inactive GDP-bound state.

Gene Ontology (GO) - Molecular Function for SYDE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005096 GTPase activator activity TAS --
genes like me logo Genes that share ontologies with SYDE2: view

Phenotypes for SYDE2 Gene

GenomeRNAi human phenotypes for SYDE2:
genes like me logo Genes that share phenotypes with SYDE2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYDE2 Gene

Localization for SYDE2 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYDE2 gene
Compartment Confidence
cytosol 5
nucleus 2
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SYDE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SYDE2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SYDE2 Gene

Pathways & Interactions for SYDE2 Gene

genes like me logo Genes that share pathways with SYDE2: view

Pathways by source for SYDE2 Gene

Gene Ontology (GO) - Biological Process for SYDE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IEA --
GO:0043087 regulation of GTPase activity IBA --
GO:0051056 regulation of small GTPase mediated signal transduction TAS --
GO:0090630 activation of GTPase activity ISS --
genes like me logo Genes that share ontologies with SYDE2: view

No data available for SIGNOR curated interactions for SYDE2 Gene

Drugs & Compounds for SYDE2 Gene

No Compound Related Data Available

Transcripts for SYDE2 Gene

mRNA/cDNA for SYDE2 Gene

(7) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(10) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SYDE2 Gene

Synapse defective 1, Rho GTPase, homolog 2 (C. elegans):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYDE2 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4
SP1: - -
SP2:
SP3: -

Relevant External Links for SYDE2 Gene

GeneLoc Exon Structure for
SYDE2
ECgene alternative splicing isoforms for
SYDE2

Expression for SYDE2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYDE2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYDE2 Gene

This gene is overexpressed in Colon - Sigmoid (x5.9) and Esophagus - Muscularis (x4.8).

Protein differential expression in normal tissues from HIPED for SYDE2 Gene

This gene is overexpressed in Fetal heart (63.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SYDE2 Gene



Protein tissue co-expression partners for SYDE2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SYDE2 Gene:

SYDE2

SOURCE GeneReport for Unigene cluster for SYDE2 Gene:

Hs.670497

Evidence on tissue expression from TISSUES for SYDE2 Gene

  • Thyroid gland(4.2)
  • Lymph node(4)
  • Lung(3.8)
  • Intestine(3.6)
  • Kidney(2.5)
genes like me logo Genes that share expression patterns with SYDE2: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYDE2 Gene

Orthologs for SYDE2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SYDE2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYDE2 34 35
  • 99.11 (n)
cow
(Bos Taurus)
Mammalia SYDE2 34 35
  • 88.63 (n)
dog
(Canis familiaris)
Mammalia SYDE2 34 35
  • 88.11 (n)
mouse
(Mus musculus)
Mammalia Syde2 34 16 35
  • 79.38 (n)
rat
(Rattus norvegicus)
Mammalia Syde2 34
  • 77.85 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SYDE2 35
  • 72 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SYDE2 35
  • 60 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYDE2 34 35
  • 68.8 (n)
lizard
(Anolis carolinensis)
Reptilia SYDE2 35
  • 56 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syde2 34
  • 66.91 (n)
zebrafish
(Danio rerio)
Actinopterygii SYDE2 35
  • 68 (a)
OneToOne
LOC100333199 34
  • 61.12 (n)
fruit fly
(Drosophila melanogaster)
Insecta RhoGAP100F 35
  • 15 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea syd-1 35
  • 17 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes BEM2 35
  • 9 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.767 35
  • 27 (a)
OneToMany
Species where no ortholog for SYDE2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SYDE2 Gene

ENSEMBL:
Gene Tree for SYDE2 (if available)
TreeFam:
Gene Tree for SYDE2 (if available)

Paralogs for SYDE2 Gene

Paralogs for SYDE2 Gene

genes like me logo Genes that share paralogs with SYDE2: view

Variants for SYDE2 Gene

Sequence variations from dbSNP and Humsavar for SYDE2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000046583 -- 85,202,788(+) TAGTA(C/G)ATACT upstream-variant-2KB
rs1000073049 -- 85,199,443(+) AATAG(A/G)GAGCT intron-variant
rs1000116338 -- 85,165,421(+) GAATG(C/T)TCATT intron-variant
rs1000150510 -- 85,183,696(+) AAACT(A/G)GATAA intron-variant
rs1000334531 -- 85,166,164(+) GGGAA(A/C)CCCCG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYDE2 Gene

Variant ID Type Subtype PubMed ID
dgv347n54 CNV loss 21841781
dgv348n54 CNV loss 21841781
dgv349n54 CNV gain 21841781
dgv350n54 CNV gain 21841781
dgv351n54 CNV gain 21841781
esv23473 CNV loss 19812545
esv3329522 CNV insertion 20981092
esv34165 CNV loss 18971310
nsv546706 CNV gain+loss 21841781
nsv546709 CNV loss 21841781
nsv830459 CNV loss 17160897

Variation tolerance for SYDE2 Gene

Residual Variation Intolerance Score: 82.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.24; 85.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYDE2 Gene

Human Gene Mutation Database (HGMD)
SYDE2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYDE2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYDE2 Gene

Disorders for SYDE2 Gene

Relevant External Links for SYDE2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYDE2

No disorders were found for SYDE2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYDE2 Gene

Publications for SYDE2 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  3. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H. … Mohammed S. (J. Proteome Res. 2013) 4 64
  4. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PMID: 21406692) Rigbolt K.T. … Blagoev B. (Sci. Signal. 2011) 4 64
  5. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PMID: 19690332) Mayya V. … Han D.K. (Sci. Signal. 2009) 4 64

Products for SYDE2 Gene

Sources for SYDE2 Gene

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