Questions, Feedback & Help
Send us an email and we'll get back to you ASAP. Or you can read our Frequently Asked Questions.
  • page settings
  • hide sidebar
  • show empty fields
  • layout
  • (too narrow)
  • open all
  • close all
  • default
Species » C. elegans(Genome assembly: WBcel235)

Variation » tm2423

  • Human diseases

  • Phenotypes

  • References

  • Tree Display

  • My Favorites

  • My Library

  • Comments on tm2423 (0)

  • Overview

    tm2423

    Species:
    Caenorhabditis elegans
    Status:
    Live
    Gene:
    Other names:
    CE47745:p.Asn113LysfsTer13, Y37A1B.2b.1:c.599_810del, Y37A1B.2c.1:c.521_732del, CE32247:p.Asn174LysfsTer13, Y37A1B.2f.1:c.338_549del, Y37A1B.2d.1:c.521_732del, CE32245:p.Asn200LysfsTer13, CE32246:p.Asn174LysfsTer13
    Comparative info:
    WormBase ID:
    WBVar00251310
    Allele: deletion

    Remarks:

    This knockout was generated by the National Bioresource Project, Tokyo, Japan, which is part of the International C. elegans Gene Knockout Consortium, which should be acknowledged in any publications resulting from its use.
    evidence

    89961/89962-90173/90174 (212 bp deletion)
  • Genetics

    Loading...
  • Isolation

    Isolated By (author):
    Isolated By:
    External Source:
    Date Isolated:
    Mutagen:
    evidence:text:TMP/UV
    Isolated Via Forward Genetics:
    Isolated Via Reverse Genetics:
    Transposon Excision:
    Transposon Insertion:
    Derived From:
    Derivate:
  • Location

    Comparative info:
    Genetic position:
    IV:11.36 +/- 0.015 cM (interpolated)
    Genomic position:
    Genome Browser:
    Launch full Genome Browser window IV:14063116..14063327 (Legacy JBrowse 1 link: IV:14063116..14063327)
    JBrowse 2-driven fully functional genome browser. Explore via the menu in the upper left corner
    This is where it should be


    Legacy Genome Browser image
    JBrowse 1
  • Molecular Details

    Comparative info:
    Variation Type:
    Allele: deletion
    Sequencing Status:
    Sequenced
    Nucleotide Change:
    212 bp deletion
    Protein Change:
    Y37A1B.2d (NKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X)
    Y37A1B.2g ()
    Y37A1B.2f (NKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X)
    Y37A1B.2c (NKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X)
    Y37A1B.2h ()
    Y37A1B.2b (NKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X)
    Flanking PCR Products:
    Polymorphism type:
    Strain:
    Polymorphism status:
    Assays:
    Sequence-only assay
    Verified PCR product:tm2423_internal
    Left Oligo:CTTCGTGTGCGCATCGAATA
    Right Oligo:GTAGCCACTCGGAACACGGT

    Sequence-only assay
    Verified PCR product:tm2423_external
    Left Oligo:GCACTGGTTCCATGTCATTC
    Right Oligo:TGACCTCAGCCGTAGCCACT

    Sequence:

    Note: sequence is reported on the (+) strand.

    red = mutation
    yellow = flanking sequence

    No sequence data available for download
    No sequence data available for download
    Sequence:
    Loading...
    CGH Flanking Probes:
    5' flank --
                 -- 3' flank
    Deletion Verification:
    Features Affected:
    Chromosome: IV
    Gene: lst-4
    Interactor (1)
    Predicted CDSs (6)
    Transcript Affects feature start feature stop start relative to feature stop relative to feature
    Y37A1B.2d140613691406985065246735
    Y37A1B.2g1406136914063211-11596
    Y37A1B.2f140613691406465913331544
    Y37A1B.2c140613691406985065246735
    Y37A1B.2h1406136914063211-11596
    Y37A1B.2b140613691406847051445355
    Transcripts (6)
    Transcript VEP consequence VEP impact PolyPhen prediction SIFT prediction CDS CDS position cDNA position Protein position Codon (WT/mutant) Amino acid (WT/mutant) Location exon Location intron HGVSc HGVSp
    Y37A1B.2d.1frameshift varianthighY37A1B.2d521-732531-742174-244aATAAGGTCAACAAGAACATCAATCGATTCTCGAATTTTGTAAAGTCCGGAGTCGAAGCGTACGTGATTGGTGAATCAAAGACCACCTCACAGATTAGTGAACGACATGAAGTTGTGATGAACAATGGAATTATTCAATGGAAACCGATTCAACAGTACTACACGTGTATAGTGGATAAACCGAAGAAAGAGTCAAAGCTGAAAGGGCTGAAG/aNKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X5/11Y37A1B.2d.1:c.521_732delCE32247:p.Asn174LysfsTer13
    Y37A1B.2g.1coding sequence variant,5 prime UTR variantmodifierY37A1B.2g?-96?-96?-321/6
    Y37A1B.2f.1frameshift varianthighY37A1B.2f338-549341-552113-183aATAAGGTCAACAAGAACATCAATCGATTCTCGAATTTTGTAAAGTCCGGAGTCGAAGCGTACGTGATTGGTGAATCAAAGACCACCTCACAGATTAGTGAACGACATGAAGTTGTGATGAACAATGGAATTATTCAATGGAAACCGATTCAACAGTACTACACGTGTATAGTGGATAAACCGAAGAAAGAGTCAAAGCTGAAAGGGCTGAAG/aNKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X4/10Y37A1B.2f.1:c.338_549delCE47745:p.Asn113LysfsTer13
    Y37A1B.2c.1frameshift varianthighY37A1B.2c521-732525-736174-244aATAAGGTCAACAAGAACATCAATCGATTCTCGAATTTTGTAAAGTCCGGAGTCGAAGCGTACGTGATTGGTGAATCAAAGACCACCTCACAGATTAGTGAACGACATGAAGTTGTGATGAACAATGGAATTATTCAATGGAAACCGATTCAACAGTACTACACGTGTATAGTGGATAAACCGAAGAAAGAGTCAAAGCTGAAAGGGCTGAAG/aNKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X5/11Y37A1B.2c.1:c.521_732delCE32246:p.Asn174LysfsTer13
    Y37A1B.2h.1coding sequence variant,5 prime UTR variantmodifierY37A1B.2h?-96?-96?-321/6
    Y37A1B.2b.1frameshift varianthighY37A1B.2b599-810599-810200-270aATAAGGTCAACAAGAACATCAATCGATTCTCGAATTTTGTAAAGTCCGGAGTCGAAGCGTACGTGATTGGTGAATCAAAGACCACCTCACAGATTAGTGAACGACATGAAGTTGTGATGAACAATGGAATTATTCAATGGAAACCGATTCAACAGTACTACACGTGTATAGTGGATAAACCGAAGAAAGAGTCAAAGCTGAAAGGGCTGAAG/aNKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X3/9Y37A1B.2b.1:c.599_810delCE32245:p.Asn200LysfsTer13
    Clone (1)
    Transcript feature start feature stop start relative to feature stop relative to feature
    Y37A1B13973155140722378996290173
    Detection Method:
    Affects Splice Site:
    Causes Frameshift:
    NKVNKNINRFSNFVKSGVEAYVIGESKTTSQISERHEVVMNNGIIQWKPIQQYYTCIVDKPKKESKLKGLK/X