List of pseudogenes

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Karen:

  • geneDDB0229999 --> samkB_ps DONE
  • fnkG --> fnkG_ps DONE
  • geneDDB0231501 --> samkE_ps1 DONE
  • geneDDB0230119 --> geneDDB0230119_ps DONE
  • CYP519H1P --> CYP519H1_ps DONE
  • GP138-1 --> GP138_ps1 DONE
  • DDB0201751 + adjacent gene predictions --> gdt10_ps (synonym: gdt4_ps) DONE
  • geneDDB0233991 DONE BY PETRA
  • geneDDB0233718 --> geneDDB0233718_ps DONE
  • geneDDB0232311 --> geneDDB0232311_ps DONE
  • geneDDB0233614 --> geneDDB0233614_ps DONE
  • geneDDB0233613 --> geneDDB0233613_ps DONE
  • geneDDB0233504 [Accidentally clicked 'pseudogene' – removed this.] DONE
  • geneDDB0233244 --> samkE_ps2 DONE
  • fnkF --> fnkF_ps DONE

Pascale:

  • geneDDB0231671 -> geneDDB0231670_ps DONE
  • racK  : most similar to rac1B. Published as racK DONE
  • rabF2 : most similar to rabF1, published as rabF2 DONE
  • arrG : almost equally similar to aarJ, arrH and arrK DONE
  • geneDDB0233253: conflicting evidence; there is an EST that reads longer -> rab_ps1 because rabZ already exists DONE
  • geneDDB0233237: geneDDB0233237_ps -> rab_ps2 DONE
  • geneDDB0233243: almost equally similar to aarJ, arrH and arrK -> arrI_ps DONE
  • geneDDB0233239: almost equally similar to aarJ, arrH and arrK -> arrJ_ps DONE
  • GP138-2 ->GP138_ps2 DONE
  • geneDDB0232245: A 1 nt intron has been introduced in this gene model to create the longest possible open reading frame. This gene might be a pseudogene. Most similar to geneDDB0232243
  • geneDDB0233576  ?? Not sure why I curated that... DELETED CM
  • geneDDB0233580 is out of frame...DELETED Cm
  • act30: act30_ps DONE

Petra:

  • csbD - put sequence through geneID and got longer/better gene model. All done; renamed to csbD_ps.OK
  • pkgE - renamed to pkgE_ps, added ps annotations OK
  • geneDDB0231304 - similar to many different classes of protein kinases, geneDDB0231304_ps? OK
  • geneDDB0233270 - similar to above - no specific kinase, geneDDB0233270_ps? OK
  • geneDDB0233271 - same as above, no specific AGC kinase, geneDDB0233271_ps OK
  • geneDDB0233273 - improved gene model; no specific kinase, geneDDB0233273_ps OK
  • geneDDB0233274 - short intron minimized; no specific kinas,e geneDDB0233274_ps OK
  • geneDDB0233275 - could not improve gene model; no specific kinase, geneDDB0233275_ps OK
  • geneDDB0232332 - changed second intron; similar to actin binding proteins, but no specific abp - geneDDB0232332_ps ? OK
  • geneDDB0233276 - minimized 2nd intron; no specific kinase, geneDDB0233276_ps OK
  • geneDDB0234165 - 181 aa; his is only half the length of actins - act32_ps OK
  • geneDDB0234166 - 365 aa; BlastN: full length actin; act16 best hit. act31_ps OK
  • geneDDB0234185 - 96 aa; act34_ps OK
  • geneDDB0234186 - 88 aa; genomic BlastN act7 5e-062, act22 7e-049, but too short - act35_ps OK
  • geneDDB0233991 - 135 aa (from Karen) act33_ps OK


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