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Sdk1 sidekick cell adhesion molecule 1 [ Mus musculus (house mouse) ]

Gene ID: 330222, updated on 23-Jun-2021

Summary

Official Symbol
Sdk1provided by MGI
Official Full Name
sidekick cell adhesion molecule 1provided by MGI
Primary source
MGI:MGI:2444413
See related
Ensembl:ENSMUSG00000039683
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
5330440E10; 6720466O15Rik
Expression
Ubiquitous expression in adrenal adult (RPKM 2.6), limb E14.5 (RPKM 2.3) and 25 other tissues See more
Orthologs
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Genomic context

See Sdk1 in Genome Data Viewer
Location:
5; 5 G2
Exon count:
45
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (141227252..142201377)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (141241497..142215586)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (141717488..142689745)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 38730 Neighboring gene predicted gene, 30866 Neighboring gene uncharacterized LOC118568762 Neighboring gene predicted gene, 54309 Neighboring gene 40S ribosomal protein S2 pseudogene Neighboring gene predicted gene 16035 Neighboring gene predicted gene, 24131 Neighboring gene predicted gene, 52792 Neighboring gene predicted gene, 30998 Neighboring gene predicted gene, 31068

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 (1)  1 citation
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within behavioral response to cocaine IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within regulation of dendritic spine development IDA
Inferred from Direct Assay
more info
PubMed 
involved_in retina layer formation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in cell junction IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
protein sidekick-1
Names
sidekick homolog 1

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_177879.5NP_808547.3  protein sidekick-1

    See identical proteins and their annotated locations for NP_808547.3

    Status: VALIDATED

    Source sequence(s)
    AK086302, AK147578
    Consensus CDS
    CCDS39360.2
    UniProtKB/Swiss-Prot
    Q3UH53
    Related
    ENSMUSP00000082928.5, ENSMUST00000085774.11
    Conserved Domains (8) summary
    cd00096
    Location:388454
    Ig; Immunoglobulin domain
    smart00408
    Location:294347
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:281357
    IG_like; Immunoglobulin like
    cd00063
    Location:16861779
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:462552
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:753839
    fn3; Fibronectin type III domain
    pfam13895
    Location:94169
    Ig_2; Immunoglobulin domain
    cl11960
    Location:476552
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Mus musculus 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 GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    141227252..142201377
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006504712.2XP_006504775.1  protein sidekick-1 isoform X1

    Conserved Domains (6) summary
    smart00409
    Location:100169
    IG; Immunoglobulin
    cd00063
    Location:16211714
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:688771
    fn3; Fibronectin type III domain
    pfam07679
    Location:397487
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:275347
    Ig_3; Immunoglobulin domain
    cl11960
    Location:492581
    Ig; Immunoglobulin domain
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