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    sdk2b sidekick cell adhesion molecule 2b [ Danio rerio (zebrafish) ]

    Gene ID: 564922, updated on 9-Dec-2024

    Summary

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    Official Symbol
    sdk2bprovided by ZNC
    Official Full Name
    sidekick cell adhesion molecule 2bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8203
    See related
    Ensembl:ENSDARG00000060452 AllianceGenome:ZFIN:ZDB-GENE-030131-8203
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fj59h01; wu:fj59h01; si:ch211-160a3.1
    Summary
    Predicted to be involved in homophilic cell adhesion via plasma membrane adhesion molecules and synapse assembly. Predicted to be located in membrane. Predicted to be active in synapse. Is expressed in ciliary marginal zone; retinal ganglion cell layer; retinal inner nuclear layer; and retinal outer nuclear layer. Orthologous to human SDK2 (sidekick cell adhesion molecule 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See sdk2b in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    47
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (37462168..38096218, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (37287428..37921819, complement)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene si:ch211-152f22.4 Neighboring gene CDC42 effector protein (Rho GTPase binding) 4b Neighboring gene uncharacterized LOC137496831 Neighboring gene uncharacterized LOC137496832 Neighboring gene uncharacterized LOC101884792 Neighboring gene uncharacterized LOC137496833

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Expression patterns of dscam and sdk gene paralogs in developing zebrafish retina. Galicia CA, et al. Mol Vis, 2018. PMID 30078982, Free PMC Article
    2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein sidekick-2
    Names
    sidekick homolog 2b

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007123.7 Reference GRCz11 Primary Assembly

      Range
      37462168..38096218 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009306870.4 → XP_009305145.1  protein sidekick-2 isoform X5

      UniProtKB/TrEMBL
      A0A8M3B4U7
      Related
      ENSDARP00000079556.6, ENSDART00000085121.6
      Conserved Domains (6) summary
      smart00408
      Location:69 → 125
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:70 → 136
      IG_like; Immunoglobulin like
      cd00063
      Location:1328 → 1421
      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:429 → 519
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:1126 → 1214
      fn3; Fibronectin type III domain
      cl11960
      Location:443 → 519
      Ig; Immunoglobulin domain

    2. XM_009306868.4 → XP_009305143.1  protein sidekick-2 isoform X3

      UniProtKB/TrEMBL
      A0A8M3AYL4
      Conserved Domains (6) summary
      smart00408
      Location:69 → 125
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:70 → 136
      IG_like; Immunoglobulin like
      cd00063
      Location:1328 → 1421
      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:429 → 519
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:1126 → 1214
      fn3; Fibronectin type III domain
      cl11960
      Location:443 → 519
      Ig; Immunoglobulin domain

    3. XM_009306869.4 → XP_009305144.1  protein sidekick-2 isoform X4

      UniProtKB/TrEMBL
      A0A8M3B7N2
      Conserved Domains (6) summary
      smart00408
      Location:69 → 125
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:70 → 136
      IG_like; Immunoglobulin like
      cd00063
      Location:1328 → 1421
      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:429 → 519
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:1126 → 1214
      fn3; Fibronectin type III domain
      cl11960
      Location:443 → 519
      Ig; Immunoglobulin domain

    4. XM_009306867.4 → XP_009305142.1  protein sidekick-2 isoform X1

      UniProtKB/TrEMBL
      A0A8M3BEB8
      Conserved Domains (6) summary
      smart00408
      Location:69 → 125
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:70 → 136
      IG_like; Immunoglobulin like
      cd00063
      Location:1328 → 1421
      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:429 → 519
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:1126 → 1214
      fn3; Fibronectin type III domain
      cl11960
      Location:443 → 519
      Ig; Immunoglobulin domain

    5. XM_021480401.2 → XP_021336076.1  protein sidekick-2 isoform X2

      UniProtKB/TrEMBL
      A0A8M9QJA7
      Related
      ENSDARP00000117666.2, ENSDART00000140353.3
      Conserved Domains (6) summary
      cd00063
      Location:1326 → 1419
      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:427 → 517
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:1124 → 1212
      fn3; Fibronectin type III domain
      pfam13927
      Location:240 → 311
      Ig_3; Immunoglobulin domain
      cd00096
      Location:351 → 419
      Ig; Immunoglobulin domain
      cl28434
      Location:522 → 611
      I-set; Immunoglobulin I-set domain
    Nucleotide Protein Strain
    Heading Accession and Version

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