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SSPO SCO-spondin [ Homo sapiens (human) ]

Gene ID: 23145, updated on 5-Aug-2018

Summary

Official Symbol
SSPOprovided by HGNC
Official Full Name
SCO-spondinprovided by HGNC
Primary source
HGNC:HGNC:21998
See related
Ensembl:ENSG00000197558 MIM:617356
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Low expression observed in reference dataset See more
Orthologs

Genomic context

See SSPO in Genome Data Viewer
Location:
7q36.1
Exon count:
103
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 7 NC_000007.14 (149776042..149833965)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (149473131..149531054)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene transfer RNA-Cys (GCA) 9-4 Neighboring gene KRAB-A domain containing 1 Neighboring gene zinc finger protein 467 Neighboring gene zinc finger protein 862 Neighboring gene ATP6V0E2 antisense RNA 1 Neighboring gene ATPase H+ transporting V0 subunit e2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Defective B3GALTL causes Peters-plus syndrome (PpS), organism-specific biosystem (from REACTOME)
    Defective B3GALTL causes Peters-plus syndrome (PpS), organism-specific biosystemHuman beta-1,3-glucosyltransferase like protein (B3GALTL, HGNC Approved Gene Symbol: B3GLCT; MIM:610308; CAZy family GT31), localised on the ER membrane, glucosylates O-fucosylated proteins. The resu...
  • Disease, organism-specific biosystem (from REACTOME)
    Disease, organism-specific biosystemBiological processes are captured in Reactome by identifying the molecules (DNA, RNA, protein, small molecules) involved in them and describing the details of their interactions. From this molecular ...
  • Diseases associated with O-glycosylation of proteins, organism-specific biosystem (from REACTOME)
    Diseases associated with O-glycosylation of proteins, organism-specific biosystemGlycosylation is the most abundant modification of proteins, variations of which occur in all living cells. Glycosylation can be further categorized into N-linked (where the oligosaccharide is conjug...
  • Diseases of glycosylation, organism-specific biosystem (from REACTOME)
    Diseases of glycosylation, organism-specific biosystemDiseases of glycosylation, usually referred to as congenital disorders of glycosylation (CDG), are rare inherited disorders ascribing defects of nucleotide-sugar biosynthesis and transport, glycosylt...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • O-glycosylation of TSR domain-containing proteins, organism-specific biosystem (from REACTOME)
    O-glycosylation of TSR domain-containing proteins, organism-specific biosystemThe O-fucosylation of proteins containing thrombospondin type 1 repeat (TSR) domains is an important PTM, regulating many biological processes such as Notch signalling, inflammation, wound healing, a...
  • O-linked glycosylation, organism-specific biosystem (from REACTOME)
    O-linked glycosylation, organism-specific biosystemO-glycosylation is an important post-translational modification (PTM) required for correct functioning of many proteins (Van den Steen et al. 1998, Moremen et al. 2012). The O-glycosylation of protei...
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ36112, FLJ45737, KIAA2036

Gene Ontology Provided by GOA

Function Evidence Code Pubs
peptidase inhibitor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of peptidase activity IEA
Inferred from Electronic Annotation
more info
 
nervous system development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular space TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
SCO-spondin
Names
SCO protein, thrombospondin domain containing
SCO-spondin homolog (Bos taurus)
subcommissural organ spondin

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_198455.2NP_940857.2  SCO-spondin precursor

    See identical proteins and their annotated locations for NP_940857.2

    Status: VALIDATED

    Source sequence(s)
    BN000852
    UniProtKB/Swiss-Prot
    A2VEC9
    Related
    ENSP00000485256.1, ENST00000378016.4
    Conserved Domains (13) summary
    smart00192
    Location:14161447
    LDLa; Low-density lipoprotein receptor domain class A
    smart00209
    Location:25582610
    TSP1; Thrombospondin type 1 repeats
    smart00216
    Location:553713
    VWD; von Willebrand factor (vWF) type D domain
    smart00231
    Location:20642224
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain
    smart00832
    Location:752824
    C8; This domain contains 8 conserved cysteine residues
    cd00057
    Location:20672223
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00112
    Location:13761411
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00057
    Location:15641599
    Ldl_recept_a; Low-density lipoprotein receptor domain class A
    pfam00094
    Location:10141163
    VWD; von Willebrand factor type D domain
    pfam01826
    Location:33153365
    TIL; Trypsin Inhibitor like cysteine rich domain
    pfam08742
    Location:12011271
    C8; C8 domain
    cl17735
    Location:19672023
    VWC; von Willebrand factor type C domain
    cl22855
    Location:28962946
    TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p12 Primary Assembly

    Range
    149776042..149833965
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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