Aliases for SSPOP Gene

Aliases for SSPOP Gene

  • SCO-Spondin, Pseudogene 2 3
  • SCO-Spondin 2 2 3 4 5
  • SSPO 3 4 5
  • SCO Protein, Thrombospondin Domain Containing 2 3
  • SCO-Spondin Homolog (Bos Taurus) 2 3
  • Subcommissural Organ Spondin 2 3
  • SCO-Spondin Pseudogene 4
  • EC 3.4.24.82 51
  • EC 3.4.21.9 51
  • KIAA0543 2
  • FLJ36112 2
  • KIAA2036 4

External Ids for SSPOP Gene

Previous HGNC Symbols for SSPOP Gene

  • SSPO

Summaries for SSPOP Gene

GeneCards Summary for SSPOP Gene

SSPOP (SCO-Spondin, Pseudogene) is a Pseudogene. Among its related pathways are Metabolism of proteins and O-glycosylation of TSR domain-containing proteins.

UniProtKB/Swiss-Prot Summary for SSPOP Gene

  • Involved in the modulation of neuronal aggregation (By similarity). May be involved in developmental events during the formation of the central nervous system (By similarity).

Gene Wiki entry for SSPOP Gene

Additional gene information for SSPOP Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SSPOP Gene

Genomics for SSPOP Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SSPOP Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SSPOP on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SSPOP

Genomic Locations for SSPOP Gene

Genomic Locations for SSPOP Gene
chr7:149,776,042-149,833,979
(GRCh38/hg38)
Size:
57,938 bases
Orientation:
Plus strand
chr7:149,473,131-149,531,068
(GRCh37/hg19)
Size:
57,938 bases
Orientation:
Plus strand

Genomic View for SSPOP Gene

Genes around SSPOP on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SSPOP Gene

Proteins for SSPOP Gene

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

    Protein Symbol:
    A2VEC9-SSPO_HUMAN
    Recommended name:
    SCO-spondin
    Protein Accession:
    A2VEC9
    Secondary Accessions:
    • A0A096LNW2
    • Q76B61

    Protein attributes for SSPOP Gene

    Size:
    5150 amino acids
    Molecular mass:
    547841 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC98376.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for SSPOP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SSPOP Gene

Selected DME Specific Peptides for SSPOP Gene

A2VEC9:
  • CPDGSDE
  • CSRSCGGG

Post-translational modifications for SSPOP Gene

  • Glycosylation at Asn88, Asn130, Asn1353, Asn261, Asn515, Asn1651, Asn1664, Asn1810, Asn820, Asn912, Asn945, Asn987, Asn1994, Asn2031, Asn2134, Asn2646, Asn2695, Asn2937, Asn2968, Asn3063, Asn3117, Asn3164, Asn3174, Asn3311, Asn3400, Asn3513, Asn3523, Asn3600, Asn3627, Asn3793, Asn3916, Asn3948, Asn4141, Asn4348, Asn4419, Asn4734, Asn4751, Asn4756, Asn4866, Asn4906, Asn4951, Asn4958, and Asn5064
  • Modification sites at PhosphoSitePlus

Domains & Families for SSPOP Gene

Gene Families for SSPOP Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for SSPOP Gene

GenScript: Design optimal peptide antigens:
  • SCO-spondin (SSPO_HUMAN)

Graphical View of Domain Structure for InterPro Entry

A2VEC9

UniProtKB/Swiss-Prot:

SSPO_HUMAN :
  • Belongs to the thrombospondin family.
Family:
  • Belongs to the thrombospondin family.
genes like me logo Genes that share domains with SSPOP: view

Function for SSPOP Gene

Molecular function for SSPOP Gene

UniProtKB/Swiss-Prot Function:
Involved in the modulation of neuronal aggregation (By similarity). May be involved in developmental events during the formation of the central nervous system (By similarity).

Enzyme Numbers (IUBMB) for SSPOP Gene

Phenotypes From GWAS Catalog for SSPOP Gene

Gene Ontology (GO) - Molecular Function for SSPOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030414 peptidase inhibitor activity IEA --
genes like me logo Genes that share ontologies with SSPOP: view
genes like me logo Genes that share phenotypes with SSPOP: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SSPOP

CRISPR Products

miRNA for SSPOP Gene

miRTarBase miRNAs that target SSPOP

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SSPOP

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SSPOP Gene

Localization for SSPOP Gene

Subcellular locations from UniProtKB/Swiss-Prot for SSPOP Gene

Secreted, extracellular space.

Gene Ontology (GO) - Cellular Components for SSPOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space TAS 22261194
genes like me logo Genes that share ontologies with SSPOP: view

No data available for Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for SSPOP Gene

Pathways & Interactions for SSPOP Gene

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

Interacting Proteins for SSPOP Gene

Selected Interacting proteins: A2VEC9-SSPO_HUMAN for SSPOP Gene via IID

Gene Ontology (GO) - Biological Process for SSPOP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IEA --
GO:0007399 nervous system development IEA --
GO:0010466 negative regulation of peptidase activity IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with SSPOP: view

No data available for SIGNOR curated interactions for SSPOP Gene

Drugs & Compounds for SSPOP Gene

No Compound Related Data Available

Transcripts for SSPOP Gene

mRNA/cDNA for SSPOP Gene

9 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SSPOP

Clone Products

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

No ASD Table

Relevant External Links for SSPOP Gene

GeneLoc Exon Structure for
SSPOP

Expression for SSPOP Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SSPOP

SOURCE GeneReport for Unigene cluster for SSPOP Gene:

Hs.632022
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SSPOP Gene

Orthologs for SSPOP Gene

This gene was present in the common ancestor of chordates.

Orthologs for SSPOP Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SSPO 30
  • 98.44 (n)
Dog
(Canis familiaris)
Mammalia SSPO 30
  • 83.67 (n)
Cow
(Bos Taurus)
Mammalia SSPO 30
  • 83.47 (n)
Rat
(Rattus norvegicus)
Mammalia Sspo 30
  • 79.55 (n)
Mouse
(Mus musculus)
Mammalia Sspo 30 17
  • 79.5 (n)
Chicken
(Gallus gallus)
Aves SSPO 30
  • 62.54 (n)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100497129 30
  • 57.42 (n)
Zebrafish
(Danio rerio)
Actinopterygii scospondin 30
  • 52.3 (n)
Species where no ortholog for SSPOP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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)
  • Worm (Caenorhabditis elegans)

Evolution for SSPOP Gene

ENSEMBL:
Gene Tree for SSPOP (if available)
TreeFam:
Gene Tree for SSPOP (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SSPOP: view image

Paralogs for SSPOP Gene

No data available for Paralogs for SSPOP Gene

Variants for SSPOP Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SSPOP Gene

SNP ID Clinical significance and condition Chr 07 pos Variation AA Info Type
rs709060 -. - p.Leu1274Prop.Ser1273Pro
rs1004200 - p.His4790Arg
rs1005603 - p.Ser4030Ile
rs1008336 - p.Arg4332Cys
rs10233245 - p.His4166Arg

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

Variant ID Type Subtype PubMed ID
dgv11714n54 CNV loss 21841781
dgv11715n54 CNV loss 21841781
dgv11716n54 CNV loss 21841781
dgv844n27 CNV loss 19166990
esv1010383 CNV deletion 20482838
esv1058616 CNV deletion 17803354
esv2735334 CNV deletion 23290073
esv2759571 CNV gain 17122850
esv3576480 CNV gain 25503493
esv3615438 CNV gain 21293372
nsv1033095 CNV gain 25217958
nsv469576 CNV loss 16826518
nsv517242 CNV loss 19592680
nsv521861 CNV loss 19592680
nsv608987 CNV loss 21841781
nsv824389 CNV gain 20364138
nsv831184 CNV gain 17160897
nsv951643 CNV deletion 24416366

Additional Variant Information for SSPOP Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Additional dbSNP identifiers (rs#s) and Variation tolerance for SSPOP Gene

Disorders for SSPOP Gene

No disorders were found for SSPOP Gene.

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

Publications for SSPOP Gene

  1. The complex multidomain organization of SCO-spondin protein is highly conserved in mammals. (PMID: 17126404) Meiniel O … Meiniel A (Brain research reviews 2007) 3 4 23
  2. Subcommissural organ/Reissner's fiber complex: characterization of SCO-spondin, a glycoprotein with potent activity on neurite outgrowth. (PMID: 11008217) Gobron S … Meiniel A (Glia 2000) 2 3 23
  3. Placental expression of SCO-spondin during mouse and human development. (PMID: 15053980) Gonçalves-Mendes N … Sapin V (Gene expression patterns : GEP 2004) 3 23
  4. The thrombospondin type 1 repeat (TSR) and neuronal differentiation: roles of SCO-spondin oligopeptides on neuronal cell types and cell lines. (PMID: 14692680) Meiniel A … Dastugue B (International review of cytology 2003) 3 23
  5. SCO-spondin: a new member of the thrombospondin family secreted by the subcommissural organ is a candidate in the modulation of neuronal aggregation. (PMID: 8743952) Gobron S … Meiniel A (Journal of cell science 1996) 2 3

Products for SSPOP Gene

Sources for SSPOP Gene