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SPON2 spondin 2 [ Homo sapiens (human) ]

Gene ID: 10417, updated on 21-Dec-2019

Summary

Official Symbol
SPON2provided by HGNC
Official Full Name
spondin 2provided by HGNC
Primary source
HGNC:HGNC:11253
See related
Ensembl:ENSG00000159674 MIM:605918
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
Also known as
DIL1; DIL-1; MINDIN; M-SPONDIN
Expression
Broad expression in prostate (RPKM 48.4), endometrium (RPKM 37.2) and 18 other tissues See more
Orthologs

Genomic context

See SPON2 in Genome Data Viewer
Location:
4p16.3
Exon count:
9
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (1166932..1208962, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (1160720..1202750, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene ring finger protein 212 Neighboring gene protein phosphatase 2 regulatory subunit B, alpha pseudogene Neighboring gene uncharacterized LOC105374344 Neighboring gene transmembrane p24 trafficking protein 11, pseudogene Neighboring gene uncharacterized LOC100130872 Neighboring gene uncharacterized LOC101928548 Neighboring gene CTBP1 antisense RNA Neighboring gene C-terminal binding protein 1 Neighboring gene CTBP1 divergent transcript

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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ16313, FLJ22401, FLJ34460, DKFZp686G21139

Gene Ontology Provided by GOA

Function Evidence Code Pubs
antigen binding IEA
Inferred from Electronic Annotation
more info
 
lipopolysaccharide binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
 
defense response to fungus IEA
Inferred from Electronic Annotation
more info
 
defense response to virus IEA
Inferred from Electronic Annotation
more info
 
induction of bacterial agglutination IEA
Inferred from Electronic Annotation
more info
 
innate immune response IEA
Inferred from Electronic Annotation
more info
 
mast cell mediated immunity IEA
Inferred from Electronic Annotation
more info
 
opsonization IEA
Inferred from Electronic Annotation
more info
 
positive regulation of interleukin-6 production IEA
Inferred from Electronic Annotation
more info
 
positive regulation of macrophage cytokine production IEA
Inferred from Electronic Annotation
more info
 
positive regulation of tumor necrosis factor production IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular exosome HDA PubMed 
extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
spondin-2
Names
differentially expressed in cancerous and non-cancerous lung cells 1
spondin 2, extracellular matrix protein

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_001128325.2NP_001121797.1  spondin-2 precursor

    See identical proteins and their annotated locations for NP_001121797.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 all encode the same protein.
    Source sequence(s)
    AA864573, AB027466, BC002707, DA092888
    Consensus CDS
    CCDS3347.1
    UniProtKB/Swiss-Prot
    Q9BUD6
    Related
    ENSP00000394832.1, ENST00000431380.5
    Conserved Domains (2) summary
    smart00209
    Location:280330
    TSP1; Thrombospondin type 1 repeats
    pfam06468
    Location:41228
    Spond_N; Spondin_N
  2. NM_001199021.1NP_001185950.1  spondin-2 precursor

    See identical proteins and their annotated locations for NP_001185950.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. It also represents a read-through transcript because it shares its first exon with that of the upstream, non-coding gene (GeneID:100130872). Variants 1, 2 and 3 all encode the same protein.
    Source sequence(s)
    AA864573, AB027466, AC092535, BC002707, DA273423
    Consensus CDS
    CCDS3347.1
    UniProtKB/Swiss-Prot
    Q9BUD6
    Related
    ENSP00000483599.1, ENST00000617421.4
    Conserved Domains (2) summary
    smart00209
    Location:280330
    TSP1; Thrombospondin type 1 repeats
    pfam06468
    Location:41228
    Spond_N; Spondin_N
  3. NM_012445.4NP_036577.2  spondin-2 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the same protein as variants 2 and 3.
    Source sequence(s)
    AC092535
    Consensus CDS
    CCDS3347.1
    Related
    ENSP00000290902.5, ENST00000290902.10
    Conserved Domains (2) summary
    smart00209
    Location:280330
    TSP1; Thrombospondin type 1 repeats
    pfam06468
    Location:41228
    Spond_N; Spondin_N

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    1166932..1208962 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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