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Species » C. elegans(Genome assembly: WBcel235)

Variation » tm3762

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  • Overview

    tm3762

    Species:
    Caenorhabditis elegans
    Status:
    Live
    Gene:
    ptr-23
    Other names:
    ZK270.1.2:c.85+29_785del, ZK270.1.1:c.85+29_785del
    Comparative info:
    Alliance of Genome Resources
    WormBase ID:
    WBVar00252370
    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

    28778/28779-29603/29604 (825 bp deletion)

  • Genetics

    Loading...

  • Isolation

    Laboratory:
    (Shohei Mitani)
    Isolated By (author):
    Mitani S
    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:
    Alliance of Genome Resources
    Genetic position:
    I:28.27 +/- 0.069 cM (interpolated)
    Genomic position:
    I:14909390..14910214
    Genome Browser:
    Launch full Genome Browser window I:14909390..14910214 (Legacy JBrowse 1 link: I:14909390..14910214)
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    Legacy Genome Browser image
    JBrowse 1

  • Molecular Details

    Comparative info:
    Alliance of Genome Resources
    Variation Type:
    Allele: deletion
    Sequencing Status:
    Sequenced
    Nucleotide Change:
    825 bp deletion
    Protein Change:
    ZK270.1 ()
    Flanking PCR Products:
    tm3762_external, tm3762_internal
    Polymorphism type:
    Strain:
    Polymorphism status:
    Assays:
    Sequence-only assay
    Verified PCR product:tm3762_internal
    Left Oligo:CGAGGTGGATCAAGGTAAGA
    Right Oligo:ATCGACATCAATCCAGCGTA

    Sequence-only assay
    Verified PCR product:tm3762_external
    Left Oligo:GGACAACGCTCACTTGACGT
    Right Oligo:CGATCCGAATTCATATCCAC

    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: I
    Gene: ptr-23
    Predicted CDSs (2)
    Transcript Affects feature start feature stop start relative to feature stop relative to feature
    ZK270.11490927714912772114938
    ZK270.11490927714912772114938
    Transcripts (2)
    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
    ZK270.1.2splice acceptor variant,splice donor variant,coding sequence variant,intron varianthighZK270.1?-785?-947?-2624-6/153-5/14ZK270.1.2:c.85+29_785del
    ZK270.1.1splice acceptor variant,splice donor variant,coding sequence variant,intron varianthighZK270.1?-785?-822?-2623-5/142-4/13ZK270.1.1:c.85+29_785del
    Clone (1)
    Transcript feature start feature stop start relative to feature stop relative to feature
    ZK27014880612149118342877929603
    Detection Method:
    Affects Splice Site:
    Causes Frameshift: