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  • In gene annotation table/gff3, why is same gene name appeared in different chromosome

    I found some genes with same gene name but in different chromosome, anyone knows the reason?
    For example:
    chr19 hg18_refFlat gene 763518 772952 . - . ID=PRG2;
    chr11 hg18_refFlat gene 56911410 56914706 . - . ID=PRG2;

    chr8 hg18_refFlat gene 38576850 38577932 . - . ID=RNF5P1;
    chr6 hg18_refFlat gene 32254210 32256545 . + . ID=RNF5P1;

    chr24 hg18_refFlat gene 1670486 1681411 . + . ID=SFRS17A;
    chr23 hg18_refFlat gene 1670486 1681411 . + . ID=SFRS17A;

    Does anyone tell me where I can find related introduction about this kind of problem? Thanks a lot!

  • #2
    Aren't chr23 and chr24 chrX and chrY ? I am facing a similar problem with some illumina data.

    Comment

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