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Ccdc80 coiled-coil domain containing 80 [ Mus musculus (house mouse) ]

Gene ID: 67896, updated on 12-May-2024

Summary

Official Symbol
Ccdc80provided by MGI
Official Full Name
coiled-coil domain containing 80provided by MGI
Primary source
MGI:MGI:1915146
See related
Ensembl:ENSMUSG00000022665 AllianceGenome:MGI:1915146
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
Urb; DRO1; Ssg1; 2610001E17Rik
Summary
Enables fibronectin binding activity and heparin binding activity. Acts upstream of or within extracellular matrix organization; positive regulation of cell-substrate adhesion; and response to bacterium. Located in basement membrane and interstitial matrix. Is expressed in blood vessel; cerebral cortex ventricular layer; choroid plexus; rib; and testis. Orthologous to human CCDC80 (coiled-coil domain containing 80). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in subcutaneous fat pad adult (RPKM 96.6), mammary gland adult (RPKM 61.1) and 12 other tissues See more
Orthologs
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Genomic context

See Ccdc80 in Genome Data Viewer
Location:
16 29.39 cM; 16 B5
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (44913770..44948287)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (45093407..45127924)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53957 Neighboring gene STARR-positive B cell enhancer ABC_E7453 Neighboring gene CD200 receptor 3 Neighboring gene STARR-seq mESC enhancer starr_40912 Neighboring gene predicted gene, 53958 Neighboring gene STARR-positive B cell enhancer ABC_E1490 Neighboring gene solute carrier family 35, member A5 Neighboring gene autophagy related 3

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)
  • Endonuclease-mediated (4) 
  • Targeted (5)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables fibronectin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables glycosaminoglycan binding IDA
Inferred from Direct Assay
more info
PubMed 
enables heparin binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in basement membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in interstitial matrix IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
coiled-coil domain-containing protein 80
Names
steroid sensitive gene 1
up-regulated in BRS-3 deficient mouse

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_026439.3NP_080715.2  coiled-coil domain-containing protein 80 precursor

    See identical proteins and their annotated locations for NP_080715.2

    Status: VALIDATED

    Source sequence(s)
    AC124600, AC129601
    Consensus CDS
    CCDS28192.1
    UniProtKB/Swiss-Prot
    A1A4B0, Q3V1Y4, Q4VA97, Q6PDE5, Q8C043, Q8R2G6, Q9CRM1, Q9CT39, Q9D6Z4
    Related
    ENSMUSP00000058752.6, ENSMUST00000061050.6
    Conserved Domains (1) summary
    pfam13778
    Location:770901
    DUF4174; Domain of unknown function (DUF4174)

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_000082.7 Reference GRCm39 C57BL/6J

    Range
    44913770..44948287
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006522500.3XP_006522563.1  coiled-coil domain-containing protein 80 isoform X1

    See identical proteins and their annotated locations for XP_006522563.1

    UniProtKB/Swiss-Prot
    A1A4B0, Q3V1Y4, Q4VA97, Q6PDE5, Q8C043, Q8R2G6, Q9CRM1, Q9CT39, Q9D6Z4
    Conserved Domains (1) summary
    pfam13778
    Location:770901
    DUF4174; Domain of unknown function (DUF4174)
  2. XM_006522501.3XP_006522564.1  coiled-coil domain-containing protein 80 isoform X1

    See identical proteins and their annotated locations for XP_006522564.1

    UniProtKB/Swiss-Prot
    A1A4B0, Q3V1Y4, Q4VA97, Q6PDE5, Q8C043, Q8R2G6, Q9CRM1, Q9CT39, Q9D6Z4
    Conserved Domains (1) summary
    pfam13778
    Location:770901
    DUF4174; Domain of unknown function (DUF4174)
  3. XM_006522498.3XP_006522561.1  coiled-coil domain-containing protein 80 isoform X1

    See identical proteins and their annotated locations for XP_006522561.1

    UniProtKB/Swiss-Prot
    A1A4B0, Q3V1Y4, Q4VA97, Q6PDE5, Q8C043, Q8R2G6, Q9CRM1, Q9CT39, Q9D6Z4
    Related
    ENSMUSP00000097097.3, ENSMUST00000099498.10
    Conserved Domains (1) summary
    pfam13778
    Location:770901
    DUF4174; Domain of unknown function (DUF4174)
  4. XM_006522499.3XP_006522562.1  coiled-coil domain-containing protein 80 isoform X1

    See identical proteins and their annotated locations for XP_006522562.1

    UniProtKB/Swiss-Prot
    A1A4B0, Q3V1Y4, Q4VA97, Q6PDE5, Q8C043, Q8R2G6, Q9CRM1, Q9CT39, Q9D6Z4
    Conserved Domains (1) summary
    pfam13778
    Location:770901
    DUF4174; Domain of unknown function (DUF4174)