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Aliases for SDF2 Gene

Aliases for SDF2 Gene

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

External Ids for SDF2 Gene

Previous GeneCards Identifiers for SDF2 Gene

  • GC17M026820
  • GC17M028875
  • GC17M027121
  • GC17M023999
  • GC17M026975
  • GC17M023184
  • GC17M028649
  • GC17M028650
  • GC17M028739
  • GC17M028829

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.

Additional gene information for SDF2 Gene

No data available for CIViC summary , 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


Enhancers around SDF2 on UCSC Golden Path with GeneCards custom track

Promoters for SDF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000092749 89 2201 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

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

Post-translational modifications for SDF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SDF2 Gene

Antibody Products

  • Abcam antibodies for SDF2
  • Santa Cruz Biotechnology (SCBT) Antibodies for SDF2

No data available for DME Specific Peptides for SDF2 Gene

Domains & Families for SDF2 Gene

Gene Families for SDF2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for SDF2 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SDF2 Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot for SDF2 Gene

Function for SDF2 Gene

Molecular function for SDF2 Gene

GENATLAS Biochemistry:
stromal cell-derived factor 2

Phenotypes From GWAS Catalog for SDF2 Gene

Gene Ontology (GO) - Molecular Function for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004169 dolichyl-phosphate-mannose-protein mannosyltransferase activity TAS 8918255
genes like me logo Genes that share ontologies with SDF2: view
genes like me logo Genes that share phenotypes with SDF2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SDF2

CRISPR Products

miRNA for SDF2 Gene

miRTarBase miRNAs that target SDF2

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SDF2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , 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
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 SDF2 gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 5
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space TAS 8918255
GO:0005789 endoplasmic reticulum membrane IBA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with SDF2: view

Pathways & Interactions for SDF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006486 protein glycosylation TAS 8918255
GO:0035269 protein O-linked mannosylation IEA --
GO:0071712 ER-associated misfolded protein catabolic process 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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SDF2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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, MaxQB, and MOPED for SDF2 Gene



Protein tissue co-expression partners for SDF2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SDF2 Gene:

SDF2

SOURCE GeneReport for Unigene cluster for SDF2 Gene:

Hs.514036

Evidence on tissue expression from TISSUES for SDF2 Gene

  • Lung(4.5)
genes like me logo Genes that share expression patterns with SDF2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
chimpanzee
(Pan troglodytes)
Mammalia SDF2 33 34
  • 99.05 (n)
dog
(Canis familiaris)
Mammalia SDF2 33 34
  • 93.21 (n)
cow
(Bos Taurus)
Mammalia SDF2 33 34
  • 93.05 (n)
mouse
(Mus musculus)
Mammalia Sdf2 33 16 34
  • 91.31 (n)
rat
(Rattus norvegicus)
Mammalia Sdf2 33
  • 90.52 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SDF2 34
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SDF2 34
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves SDF2 33 34
  • 72.67 (n)
lizard
(Anolis carolinensis)
Reptilia SDF2 34
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sdf2 33
  • 71.82 (n)
Str.11212 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.15478 33
zebrafish
(Danio rerio)
Actinopterygii sdf2 33 34
  • 68.9 (n)
wufk23f01 33
fruit fly
(Drosophila melanogaster)
Insecta CG11999 35 33 34
  • 55.56 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001749 33
  • 54.43 (n)
worm
(Caenorhabditis elegans)
Secernentea R12E2.13 35 33 34
  • 54.1 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons SDF2 33
  • 49.73 (n)
rice
(Oryza sativa)
Liliopsida Os08g0440500 33
  • 50.48 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11079 34
  • 54 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4577 33
Species where no ortholog for SDF2 was found in the sources mined by GeneCards:
  • 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
rs1000191219 -- 28,651,229(+) GCTAA(C/T)TTTGG intron-variant
rs1000726524 -- 28,658,198(+) CCTTA(G/T)ACCTT intron-variant
rs1000864247 -- 28,661,006(+) AGCCA(C/T)GTAGT intron-variant, upstream-variant-2KB
rs1000977982 -- 28,655,557(+) GAGTG(C/T)GCTCA intron-variant
rs1001027964 -- 28,648,594(+) TCATA(A/G)TAAAA nc-transcript-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for SDF2 Gene

Variant ID Type Subtype PubMed ID
nsv1064087 CNV gain 25217958

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

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot 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 22 60
  2. Phenotype-genotype interactions on renal function in type 2 diabetes: an analysis using structural equation modelling. (PMID: 19479237) Song XY … Chan JC (Diabetologia 2009) 3 45 60
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  4. An Interaction Landscape of Ubiquitin Signaling. (PMID: 28190767) Zhang X … Vermeulen M (Molecular cell 2017) 3 60
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60

Products for SDF2 Gene

Sources for SDF2 Gene

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