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Sdcbp syndecan binding protein [ Mus musculus (house mouse) ]

Gene ID: 53378, updated on 3-Apr-2024

Summary

Official Symbol
Sdcbpprovided by MGI
Official Full Name
syndecan binding proteinprovided by MGI
Primary source
MGI:MGI:1337026
See related
Ensembl:ENSMUSG00000028249 AllianceGenome:MGI:1337026
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Sycl; MDA-9; syntenin-1
Summary
Enables interleukin-5 receptor binding activity. Involved in positive regulation of cell growth; positive regulation of cell migration; and positive regulation of cell population proliferation. Acts upstream of or within Ras protein signal transduction. Part of interleukin-5 receptor complex. Is expressed in several structures, including central nervous system; heart; nose; skin; and urinary system. Orthologous to human SDCBP (syndecan binding protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 62.3), bladder adult (RPKM 56.4) and 28 other tissues See more
Orthologs
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Genomic context

See Sdcbp in Genome Data Viewer
Location:
4 A1; 4 2.91 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (6365713..6396120)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (6365680..6396122)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene Cyp7a1 promoter Neighboring gene STARR-seq mESC enhancer starr_09478 Neighboring gene cytochrome P450, family 7, subfamily a, polypeptide 1 Neighboring gene STARR-seq mESC enhancer starr_09479 Neighboring gene RIKEN cDNA 4930430E12 gene Neighboring gene neutral sphingomyelinase (N-SMase) activation associated factor Neighboring gene STARR-positive B cell enhancer ABC_E9011 Neighboring gene STARR-seq mESC enhancer starr_09480 Neighboring gene STARR-seq mESC enhancer starr_09482 Neighboring gene STARR-seq mESC enhancer starr_09483 Neighboring gene coiled-coil-helix-coiled-coil-helix domain-containing protein 2 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables cell adhesion molecule binding ISO
Inferred from Sequence Orthology
more info
 
enables ephrin receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables frizzled binding ISO
Inferred from Sequence Orthology
more info
 
enables growth factor binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables interleukin-5 receptor binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables ionotropic glutamate receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables lipid binding IEA
Inferred from Electronic Annotation
more info
 
enables neurexin family protein binding ISO
Inferred from Sequence Orthology
more info
 
enables phosphatidylinositol-4,5-bisphosphate binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables protein sequestering activity ISO
Inferred from Sequence Orthology
more info
 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables syndecan binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables syndecan binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within Ras protein signal transduction IPI
Inferred from Physical Interaction
more info
PubMed 
involved_in negative regulation of receptor internalization ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell growth ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of epithelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of exosomal secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of extracellular exosome assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transforming growth factor beta receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in presynapse assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in anchoring junction IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular exosome ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
part_of interleukin-5 receptor complex IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in membrane raft ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
syntenin-1
Names
scaffold protein Pbp1
syndecan interacting protein
syndecan-binding protein 1
syntenin

NCBI Reference Sequences (RefSeq)

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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_001098227.2NP_001091697.1  syntenin-1 isoform 1

    See identical proteins and their annotated locations for NP_001091697.1

    Status: VALIDATED

    Source sequence(s)
    AL772306
    Consensus CDS
    CCDS51110.1
    UniProtKB/Swiss-Prot
    A2AKJ7, O08992, Q544P5
    UniProtKB/TrEMBL
    Q3TET7, Q3U6J5, Q3U724, Q3U902, Q3UB97, Q3UBE4
    Related
    ENSMUSP00000029912.5, ENSMUST00000029912.11
    Conserved Domains (1) summary
    cd00992
    Location:113192
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  2. NM_001424991.1NP_001411920.1  syntenin-1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/Swiss-Prot
    A2AKJ7, O08992, Q544P5
  3. NM_001424992.1NP_001411921.1  syntenin-1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/Swiss-Prot
    A2AKJ7, O08992, Q544P5
  4. NM_001424993.1NP_001411922.1  syntenin-1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/Swiss-Prot
    A2AKJ7, O08992, Q544P5
  5. NM_001424994.1NP_001411923.1  syntenin-1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/Swiss-Prot
    A2AKJ7, O08992, Q544P5
  6. NM_001424995.1NP_001411924.1  syntenin-1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/TrEMBL
    Q3TMX0
  7. NM_001424996.1NP_001411925.1  syntenin-1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/TrEMBL
    Q3TMX0
  8. NM_001424997.1NP_001411926.1  syntenin-1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL772306
    UniProtKB/TrEMBL
    Q3TMX0
  9. NM_001424998.1NP_001411927.1  syntenin-1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL772306
  10. NM_016807.3NP_058087.2  syntenin-1 isoform 2

    See identical proteins and their annotated locations for NP_058087.2

    Status: VALIDATED

    Source sequence(s)
    AL772306
    Consensus CDS
    CCDS17951.1
    UniProtKB/TrEMBL
    O88601, Q3TMX0, Q3TWV1, Q3TXC7, Q3UC68
    Related
    ENSMUSP00000100073.6, ENSMUST00000103008.12
    Conserved Domains (1) summary
    cd00992
    Location:112191
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    6365713..6396120
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)