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Aliases for SDF4 Gene

Aliases for SDF4 Gene

  • Stromal Cell Derived Factor 4 2 3
  • Cab45 3 4 6
  • SDF-4 3 4
  • 45 KDa Calcium-Binding Protein 3
  • Stromal Cell-Derived Factor 4 4
  • Calcium Binding Protein 2

External Ids for SDF4 Gene

Previous GeneCards Identifiers for SDF4 Gene

  • GC01M001181
  • GC01M001143
  • GC01M000423
  • GC01M001152

Summaries for SDF4 Gene

Entrez Gene Summary for SDF4 Gene

  • This gene encodes a stromal cell derived factor that is a member of the CREC protein family. The encoded protein contains six EF-hand motifs and calcium-binding motifs. This protein localizes to the Golgi lumen and may be involved in regulating calcium dependent cellular activities. [provided by RefSeq, Sep 2011]

GeneCards Summary for SDF4 Gene

SDF4 (Stromal Cell Derived Factor 4) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding and identical protein binding. An important paralog of this gene is CALU.

UniProtKB/Swiss-Prot for SDF4 Gene

  • May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment.

  • Isoform 5 may be involved in the exocytosis of zymogens by pancreatic acini

Gene Wiki entry for SDF4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDF4 Gene

Genomics for SDF4 Gene

Regulatory Elements for SDF4 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SDF4 Gene

Start:
1,216,908 bp from pter
End:
1,232,067 bp from pter
Size:
15,160 bases
Orientation:
Minus strand

Genomic View for SDF4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SDF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDF4 Gene

Proteins for SDF4 Gene

  • Protein details for SDF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRK5-CAB45_HUMAN
    Recommended name:
    45 kDa calcium-binding protein
    Protein Accession:
    Q9BRK5
    Secondary Accessions:
    • B1AME5
    • B1AME6
    • B2RDF1
    • B4DSM1
    • Q53G52
    • Q53HQ9
    • Q8NBQ3
    • Q96AA1
    • Q9NZP7
    • Q9UN53

    Protein attributes for SDF4 Gene

    Size:
    362 amino acids
    Molecular mass:
    41807 Da
    Quaternary structure:
    • Isoform 5 interacts with STXBP1; the interaction is enhanced in presence of calcium. Isoform 5 interacts with STX3.
    SequenceCaution:
    • Sequence=AAL75950.1; Type=Frameshift; Positions=Several; Evidence={ECO:0000305};

    Alternative splice isoforms for SDF4 Gene

neXtProt entry for SDF4 Gene

Proteomics data for SDF4 Gene at MOPED

Post-translational modifications for SDF4 Gene

  • Ubiquitination at Lys85 and Lys350
  • Glycosylation at Asn40, Ser108, Ser343, Thr347, Ser349, and Ser357
  • Modification sites at PhosphoSitePlus

Other Protein References for SDF4 Gene

No data available for DME Specific Peptides for SDF4 Gene

Domains for SDF4 Gene

Gene Families for SDF4 Gene

HGNC:
  • EFHAND :EF-hand domain containing

Protein Domains for SDF4 Gene

Suggested Antigen Peptide Sequences for SDF4 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BRK5

UniProtKB/Swiss-Prot:

CAB45_HUMAN :
  • Q9BRK5
Domain:
  • Binds calcium via its EF-hands (By similarity). Isoform 5 binds calcium.
  • Contains 6 EF-hand domains.
Family:
  • Belongs to the CREC family.
genes like me logo Genes that share domains with SDF4: view

Function for SDF4 Gene

Molecular function for SDF4 Gene

UniProtKB/Swiss-Prot Function: May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment.
UniProtKB/Swiss-Prot Function: Isoform 5 may be involved in the exocytosis of zymogens by pancreatic acini

Gene Ontology (GO) - Molecular Function for SDF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding ISS --
GO:0005515 protein binding IPI 17442889
GO:0042802 identical protein binding ISS 17442889
genes like me logo Genes that share ontologies with SDF4: view

Animal Model Products

CRISPR Products

miRNA for SDF4 Gene

miRTarBase miRNAs that target SDF4

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for SDF4 Gene

Localization for SDF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDF4 Gene

Isoform 1: Golgi apparatus lumen.
Isoform 5: Cytoplasm. Cell projection, bleb. Note=Isoform 5 colocalizes with STX3 and STXBP1 isoform 2 at the plasma membrane and cell surface blebs.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SDF4 Gene COMPARTMENTS Subcellular localization image for SDF4 gene
Compartment Confidence
endosome 3
golgi apparatus 3
cytoskeleton 2
cytosol 2
endoplasmic reticulum 2
extracellular 2
nucleus 2
plasma membrane 2
lysosome 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for SDF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm ISS 17442889
GO:0005770 late endosome ISS --
GO:0005794 Golgi apparatus IDA --
GO:0005796 Golgi lumen ISS --
GO:0005886 colocalizes_with plasma membrane ISS 17442889
genes like me logo Genes that share ontologies with SDF4: view

Pathways for SDF4 Gene

SuperPathways for SDF4 Gene

No Data Available

Interacting Proteins for SDF4 Gene

Gene Ontology (GO) - Biological Process for SDF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009650 UV protection ISS 18355758
GO:0017156 calcium ion-dependent exocytosis ISS 17442889
GO:0021549 cerebellum development ISS 18355758
GO:0045444 fat cell differentiation ISS --
GO:0045471 response to ethanol ISS 18355758
genes like me logo Genes that share ontologies with SDF4: view

No data available for Pathways by source for SDF4 Gene

Compounds for SDF4 Gene

(1) HMDB Compounds for SDF4 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with SDF4: view

Transcripts for SDF4 Gene

Unigene Clusters for SDF4 Gene

Stromal cell derived factor 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SDF4

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDF4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b · 8c · 8d
SP1: - -
SP2: - - -
SP3: - - - - -
SP4: - - - - - - -
SP5: - - - -
SP6: - - -
SP7:
SP8: - -
SP9: - -

Relevant External Links for SDF4 Gene

GeneLoc Exon Structure for
SDF4
ECgene alternative splicing isoforms for
SDF4

Expression for SDF4 Gene

mRNA expression in normal human tissues for SDF4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SDF4 Gene

SOURCE GeneReport for Unigene cluster for SDF4 Gene Hs.42806

mRNA Expression by UniProt/SwissProt for SDF4 Gene

Q9BRK5-CAB45_HUMAN
Tissue specificity: Ubiquitous. Isoform 5 is expressed in pancreas.
genes like me logo Genes that share expressions with SDF4: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for SDF4 Gene

Orthologs for SDF4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SDF4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SDF4 35
  • 84.6 (n)
  • 84.51 (a)
SDF4 36
  • 83 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SDF4 35
  • 84.04 (n)
  • 86.76 (a)
SDF4 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdf4 35
  • 83.01 (n)
  • 87.26 (a)
Sdf4 16
Sdf4 36
  • 86 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SDF4 36
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDF4 36
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdf4 35
  • 82.46 (n)
  • 86.7 (a)
chicken
(Gallus gallus)
Aves SDF4 35
  • 73.21 (n)
  • 80.97 (a)
SDF4 36
  • 78 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.6490 35
tropical clawed frog
(Silurana tropicalis)
Amphibia sdf4 35
  • 70.23 (n)
  • 75.49 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10046 35
zebrafish
(Danio rerio)
Actinopterygii sdf4 35
  • 71.21 (n)
  • 75.07 (a)
sdf4 36
  • 73 (a)
OneToOne
wufb66d06 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002810 35
  • 49.27 (n)
  • 38.25 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG31475 35
  • 48.63 (n)
  • 35.69 (a)
CG31475 36
  • 25 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea C56C10.9 35
  • 43.94 (n)
  • 30.87 (a)
C56C10.9 36
  • 28 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 33 (a)
OneToOne
Species with no ortholog for SDF4:
  • 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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 SDF4 Gene

ENSEMBL:
Gene Tree for SDF4 (if available)
TreeFam:
Gene Tree for SDF4 (if available)

Paralogs for SDF4 Gene

Paralogs for SDF4 Gene

genes like me logo Genes that share paralogs with SDF4: view

Variants for SDF4 Gene

Sequence variations from dbSNP and Humsavar for SDF4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs11721 -- 1,217,251(-) ATCGT(A/C/G/T)GCATC utr-variant-3-prime
rs944369 -- 1,221,049(+) CAGGA(C/G)TTTGA intron-variant
rs1756271 -- 1,219,654(+) GCCCA(C/T)CCGGC intron-variant
rs2887286 -- 1,220,751(-) ACTTT(A/G)TTTGG intron-variant
rs3737724 -- 1,219,532(-) TTCCT(C/T)CCTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDF4 Gene

Variant ID Type Subtype PubMed ID
nsv10161 CNV Gain+Loss 18304495
nsv517709 CNV Gain+Loss 19592680
nsv428334 CNV Gain 18775914
dgv2n67 CNV Gain 20364138
nsv871547 CNV Loss 21882294
dgv10n71 CNV Loss 21882294
dgv11n71 CNV Loss 21882294
dgv12n71 CNV Loss 21882294
nsv470680 CNV Loss 18288195
dgv17n71 CNV Loss 21882294
nsv871553 CNV Loss 21882294
dgv19n71 CNV Loss 21882294
dgv20n71 CNV Loss 21882294
nsv870527 CNV Gain 21882294
nsv469848 CNV Gain 16826518
dgv21n71 CNV Loss 21882294
nsv871744 CNV Gain 21882294
nsv482937 CNV Loss 15286789
dgv22n71 CNV Loss 21882294
nsv871107 CNV Loss 21882294
dgv23n71 CNV Loss 21882294
nsv871427 CNV Loss 21882294
nsv871680 CNV Loss 21882294
dgv24n71 CNV Loss 21882294
nsv871329 CNV Gain 21882294
dgv25n71 CNV Loss 21882294
dgv26n71 CNV Loss 21882294
nsv871512 CNV Loss 21882294
dgv27n71 CNV Loss 21882294
nsv455661 CNV Loss 19166990
nsv871327 CNV Loss 21882294
nsv159887 CNV Loss 16902084
nsv870639 CNV Loss 21882294
nsv871666 CNV Gain+Loss 21882294
nsv871965 CNV Loss 21882294
esv2745030 CNV Deletion 23290073
esv2745141 CNV Deletion 23290073
esv2745252 CNV Deletion 23290073
nsv821698 CNV Gain 20364138

Relevant External Links for SDF4 Gene

HapMap Linkage Disequilibrium report
SDF4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDF4 Gene

Disorders for SDF4 Gene

Relevant External Links for SDF4

Genetic Association Database (GAD)
SDF4
Human Genome Epidemiology (HuGE) Navigator
SDF4
genes like me logo Genes that share disorders with SDF4: view

No data available for UniProtKB/Swiss-Prot for SDF4 Gene

Publications for SDF4 Gene

  1. Sequence of a human cDNA encoding Cab45, a Ca2+-binding protein with six EF-hand motifs. (PMID: 9254016) Koivu T. … Olkkonen V.M. (DNA Seq. 1997) 2 3 4
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  3. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PMID: 16303743) Otsuki T. … Isogai T. (DNA Res. 2005) 3 4
  4. A cytosolic splice variant of Cab45 interacts with Munc18b and impacts on amylase secretion by pancreatic acini. (PMID: 17442889) Lam P.P. … Olkkonen V.M. (Mol. Biol. Cell 2007) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4

Products for SDF4 Gene

Sources for SDF4 Gene

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