rliB - dictyBase/community-annotations GitHub Wiki

The genomic sequence has a stop codon in frame compared with EST DDB0166819; the Q residue at position 776 is supported by many other Dictyostelids from several groups, e.g. D. purpureum, H.album, P. violaceum, and T. lacteum homologs; the correct protein sequence is shown here:

MKNINNKILKIFILFLAICSVKSDTCPTDSNWRPTPASSNSPVSPALPTTSLASDIVYGG
NDLYYMAYWSMTDPNNLQPVSDVESEFSIALPAWAPDYFLIVAKQSAPALKANTNYQFSF
DFKLGQVLTQGITYSNMTLSFYKPGDIDYLLWSYRAPMYSFTFTGDFSSTTYKSKTITFS
VPVDLGLSTLILQVNRSRAMDYDDTTIFYKNMKITVPSKPVVAPPNLITKDSELINIPKA
SVSLDPQDLSTCPYLASDLVHWHNPSTWSNNLVPQPNENITIPAGKRVLISPCSISQTAI
YQRIVIPATSELIFADSNLTMNVKDILVQGKFIMGTTKCRYNANINIIFHGSKTKVDTIA
PFYGSKGIAVSAGGFISVHGKQYHNSWTKLASTVWSGDRIIYVQDNINWEVGQQVLITTS
QFKDEIDNQNEVLTIKSILGKAIEFTTPIKFYHYGGKEYQAEVALLSRRIIFQGNDESDQ
DSFGGHVLVSGEGQFAGIQLKKMGQRNVKARYPLHFHLANVVQKSYISDCVVTKSYYRCY
TIHGTNNLTLTRNVAFDVNGHCYYLEDGVEMDNTLSYNLAAFVHTIGEPAAGGAQTGETY
YENENLTQPADSAAGGFYITNAYNTIIGNSASGGWAGFSFPNLEKPIGNHKNVEMEPQAF
TTKVFEGNTAHSSGYQWISGSSIYVGGKLITDEVTGLLVYNTGRHSRPTCKDGIFSYDSS
TYLWMRFNNTKVYLSNLGLGHWGDRVEVVGLEAYDSMRPASLFGAAWLSNAIVDGQTGNI
LSKSQSYNRQGFQFYDTYVTTILSHITFRNFIQNPTSVYPDDDNVVIIALTFSDLYKPQF
ISSTINITLENILPAQIIGHKIVPDSGSSRFFNFIDWDGSLVGTHVPTIVGSHEKWWSYD
DSKCTYNNDWTIWVCQKGSKSVGNIEFWVPNLIIRGEQNEGDSFVGSVSLFGDGITDVRK
TAITRNAGITGITSTGWMLWLDGGSPTYLQVWAAQVAYQQYIFLAIPYPPGTTFTISTEN
KWAWQNAYGFNCTLASSAAEVRSSNGTKYYFDQTHLFVKIVNPVLTGSPAESFNRGGAKI
DDVYWEYIYHINATNPNVSPNQDGFYTNLSYTLPSSTL

Pascale Gaudet January 2009

pfey July 2022 updated


Protein alignment with correct sequence on top and the missing Q - Glutamine residue in the curated model from genomic sequence at bottom.

correct: 721  TYLWMRFNNTKVYLSNLGLGHWGDRVEVVGLEAYDSMRPASLFGAAWLSNAIVDGQTGNI 780
              TYLWMRFNNTKVYLSNLGLGHWGDRVEVVGLEAYDSMRPASLFGAAWLSNAIVDG TGNI 
genomic: 721  TYLWMRFNNTKVYLSNLGLGHWGDRVEVVGLEAYDSMRPASLFGAAWLSNAIVDG-TGNI 779

Alignment of EST on top and genomic sequence at bottom; note the change from CAA to TAA which is a stop codon in frame in the middle alignement; an artificial gap has been introduced in the curated model to delete the stop codon, see protein alignment above.

EST:    183  tgttggattagaagcatatgattcaatgagaccagcatcattatttggtgcagcatggtt 242
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
genome: 3636 tgttggattagaagcatatgattcaatgagaccagcatcattatttggtgcagcatggtt 3695

EST:    243  atcaaatgcaattgttgatggtcaaaccggcaatattcttagtaaatcacaatcatacaa 302
             |||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| 
genome: 3696 atcaaatgcaattgttgatggttaaaccggcaatattcttagtaaatcacaatcatacaa 3755

EST: 303     tagacaaggattccaattttatgatacctacgttacaactatcctctctcatattacatt 362
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
genome: 3756 tagacaaggattccaattttatgatacctacgttacaactatcctctctcatattacatt 3815

pfey July 2022


return to rliB Gene Page

⚠️ **GitHub.com Fallback** ⚠️