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Aliases for SDF2 Gene

Aliases for SDF2 Gene

  • Stromal Cell Derived Factor 2 2 3
  • Stromal Cell-Derived Factor 2 2 5
  • SDF-2 3 4

External Ids for SDF2 Gene

Previous GeneCards Identifiers for SDF2 Gene

  • GC17M026820
  • GC17M028875
  • GC17M027121
  • GC17M023999
  • GC17M026975
  • GC17M023184

Summaries for SDF2 Gene

Entrez Gene Summary for SDF2 Gene

  • The protein encoded by this gene is believed to be a secretory protein. It has regions of similarity to hydrophilic segments of yeast mannosyltransferases. Its expression is ubiquitous and the gene appears to be relatively conserved among mammals. Alternate splicing results in both coding and non-coding variants. A pseudogene of this gene is located on chromosome 15. [provided by RefSeq, Dec 2011]

GeneCards Summary for SDF2 Gene

SDF2 (Stromal Cell Derived Factor 2) is a Protein Coding gene. GO annotations related to this gene include dolichyl-phosphate-mannose-protein mannosyltransferase activity. An important paralog of this gene is SDF2L1.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDF2 Gene

Genomics for SDF2 Gene

Regulatory Elements for SDF2 Gene

Promoters for SDF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SDF2 on UCSC Golden Path with GeneCards custom track

Genomic Location for SDF2 Gene

Chromosome:
17
Start:
28,648,356 bp from pter
End:
28,662,189 bp from pter
Size:
13,834 bases
Orientation:
Minus strand

Genomic View for SDF2 Gene

Genes around SDF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDF2 Gene

Proteins for SDF2 Gene

  • Protein details for SDF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99470-SDF2_HUMAN
    Recommended name:
    Stromal cell-derived factor 2
    Protein Accession:
    Q99470
    Secondary Accessions:
    • Q9BQ79

    Protein attributes for SDF2 Gene

    Size:
    211 amino acids
    Molecular mass:
    23026 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SDF2 Gene

Proteomics data for SDF2 Gene at MOPED

Post-translational modifications for SDF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SDF2 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for SDF2 Gene

Domains & Families for SDF2 Gene

Protein Domains for SDF2 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SDF2 Gene

Graphical View of Domain Structure for InterPro Entry

Q99470

UniProtKB/Swiss-Prot:

SDF2_HUMAN :
  • Contains 3 MIR domains.
Domain:
  • Contains 3 MIR domains.
genes like me logo Genes that share domains with SDF2: view

No data available for Gene Families for SDF2 Gene

Function for SDF2 Gene

Molecular function for SDF2 Gene

GENATLAS Biochemistry:
stromal cell-derived factor 2
genes like me logo Genes that share phenotypes with SDF2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SDF2

miRNA for SDF2 Gene

miRTarBase miRNAs that target SDF2

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SDF2 Gene

Localization for SDF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDF2 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SDF2 Gene COMPARTMENTS Subcellular localization image for SDF2 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 5
lysosome 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for SDF2 Gene

Pathways & Interactions for SDF2 Gene

SuperPathways for SDF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000032 cell wall mannoprotein biosynthetic process IBA --
GO:1900101 regulation of endoplasmic reticulum unfolded protein response IBA --
genes like me logo Genes that share ontologies with SDF2: view

No data available for Pathways by source and SIGNOR curated interactions for SDF2 Gene

Drugs & Compounds for SDF2 Gene

(1) Drugs for SDF2 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Malonate Ion Experimental Pharma Target 0
genes like me logo Genes that share compounds with SDF2: view

Transcripts for SDF2 Gene

Unigene Clusters for SDF2 Gene

Stromal cell-derived factor 2:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SDF2 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - -
SP2: - -
SP3: -
SP4: - - - - - -
SP5: - - - -
SP6: - - - - - - -
SP7:

Relevant External Links for SDF2 Gene

GeneLoc Exon Structure for
SDF2
ECgene alternative splicing isoforms for
SDF2

Expression for SDF2 Gene

mRNA expression in normal human tissues for SDF2 Gene

Protein differential expression in normal tissues from HIPED for SDF2 Gene

This gene is overexpressed in Bone (7.5), Placenta (7.3), and Fetal testis (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for SDF2 Gene



SOURCE GeneReport for Unigene cluster for SDF2 Gene Hs.514036

genes like me logo Genes that share expression patterns with SDF2: view

Protein tissue co-expression partners for SDF2 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SDF2 Gene

Orthologs for SDF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SDF2 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SDF2 35
  • 93.05 (n)
  • 95.73 (a)
SDF2 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SDF2 35
  • 93.21 (n)
  • 97.16 (a)
SDF2 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdf2 35
  • 91.31 (n)
  • 95.26 (a)
Sdf2 16
Sdf2 36
  • 91 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SDF2 35
  • 99.05 (n)
  • 99.53 (a)
SDF2 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdf2 35
  • 90.52 (n)
  • 94.79 (a)
oppossum
(Monodelphis domestica)
Mammalia SDF2 36
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDF2 36
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves SDF2 35
  • 72.67 (n)
  • 79.65 (a)
SDF2 36
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SDF2 36
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sdf2 35
  • 71.82 (n)
  • 78.87 (a)
Str.11212 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.15478 35
zebrafish
(Danio rerio)
Actinopterygii sdf2 35
  • 68.9 (n)
  • 71.65 (a)
wufk23f01 35
sdf2 36
  • 64 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG11999 37
  • 51 (a)
CG11999 35
  • 55.56 (n)
  • 53.65 (a)
CG11999 36
  • 48 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001749 35
  • 54.43 (n)
  • 54.26 (a)
worm
(Caenorhabditis elegans)
Secernentea R12E2.13 37
  • 54 (a)
R12E2.13 35
  • 54.1 (n)
  • 54.29 (a)
R12E2.13 36
  • 47 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons SDF2 35
  • 49.73 (n)
  • 43.85 (a)
rice
(Oryza sativa)
Liliopsida Os08g0440500 35
  • 50.48 (n)
  • 46.24 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4577 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11079 36
  • 54 (a)
OneToMany
Species with no ortholog for SDF2:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SDF2 Gene

ENSEMBL:
Gene Tree for SDF2 (if available)
TreeFam:
Gene Tree for SDF2 (if available)

Paralogs for SDF2 Gene

Paralogs for SDF2 Gene

(1) SIMAP similar genes for SDF2 Gene using alignment to 4 proteins:

Pseudogenes.org Pseudogenes for SDF2 Gene

genes like me logo Genes that share paralogs with SDF2: view

Variants for SDF2 Gene

Sequence variations from dbSNP and Humsavar for SDF2 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
VAR_051913 -
rs642199 -- 28,654,389(+) AACCC(A/C/G/T)ATGTT intron-variant
rs1784564 -- 28,648,090(-) acccg(C/G)caaca downstream-variant-500B
rs1263223 -- 28,654,853(-) tcagc(C/T)gcccg intron-variant
rs622463 -- 28,648,556(-) GCTAT(G/T)TCATT nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime

Variation tolerance for SDF2 Gene

Residual Variation Intolerance Score: 41.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.97; 36.51% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDF2 Gene

HapMap Linkage Disequilibrium report
SDF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SDF2 Gene

Disorders for SDF2 Gene

Relevant External Links for SDF2

Genetic Association Database (GAD)
SDF2
Human Genome Epidemiology (HuGE) Navigator
SDF2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDF2

No disorders were found for SDF2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SDF2 Gene

Publications for SDF2 Gene

  1. Isolation and characterization of a novel secretory protein, stromal cell-derived factor-2 (SDF-2) using the signal sequence trap method. (PMID: 8918255) Hamada T. … Honjo T. (Gene 1996) 2 3 4 23 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  4. Proteomic analysis of the epidermal growth factor receptor (EGFR) interactome and post-translational modifications associated with receptor endocytosis in response to EGF and stress. (PMID: 24797263) Tong J. … Moran M.F. (Mol. Cell Proteomics 2014) 3
  5. Global landscape of HIV-human protein complexes. (PMID: 22190034) JAoger S. … Krogan N.J. (Nature 2012) 3

Products for SDF2 Gene

Sources for SDF2 Gene

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