From: 	FB_HelpMail_checked@XXXX
Reply-To: 	hughrobe@XXXX
To: 	flybase-help@XXXX
Subject: 	FB Help Mailer: 605 Gene data (problem or question)
Date: 	Tue, 25 Sep 2007  01:45:18  -0400  ( 06:45  BST)
 comments:    Is FlyBase still interested in gene model modifications? I presume you are engaged in revising many gene models in light of the 12 genome comparisons. I've been doing the same manually for several genes, and have suggested changes for their gene model.
    CG32395 probably starts later, as the extended N-terminus I submitted long time ago to FlyBase is not encoded in most of the other species.
    MREVNLLNRFTRQFLFLIVLVTQICGVATFVYNSKAQCFRQSGFLRFYSSLVLIFLALFLIVTTSKMFHNLQAVWPYVVG
    SVIILVVRIHGLLESAEIVELLNQMLRIMRQVNLMARHPNLFRLKHLLLLLLALQNLLRSLNTIVGISNHSAEAYDSFLN
    SVILLIILAVLLSFLLQITINICLFVVLIATYSELHHCTRRISNDMDKLRLHSVHESGQFMVLVKQLQGITEKLIRLRQN
    VFHITVRIIRHFRFHWLCAIIYGLLPFFSLTAKDQNGFNFLIISALNIIFQWTIFAILSRESRITRSLCTFHLTNYHKET
    ARTIDELLHQEIWERITVTIYGNTLDTKLLFKLLSISAFCAFVNRLEYLHI
    CG31785 needs the first intron donor moved along, and the second intron, which is open and in frame, is coding.
    MSCLKSVLQLLQVLTTLSGCNIYKYIEGRRVFKVNPKINLLVGAVHRFWLRPYLLTTFLMHLIFWLAEFRKGLTDLTPGS
    ERSLQLTYEIGLTVAKYRNVFISTGIAYHYRHHQKLMRRVLNEFIRIYYSYERICGKVPKINWLLFGIQAYRAFVASMAP
    IVGNQKMGLGISPNVDILLGLSAVIFVCIQPLLLSLVAYLGIMLLYACYDIQVPHNRRKSFQLFVFYRQLIRLRHAFDCL
    VRSFVWTALAHSFFIFIANFHLILYDQQSAIDFGESLLSSFICPVALLHINVTISSIEKTFGQFRASFKPQRQTQMMWLY
    MHVMRATVDKSGFNAFRLDRGHILEMLRLGWSFAMFTNAMLLNSTARLKHFKTVNYKKLL
    CG34259 needs a final exon.
    MPLSAPLHKVLCVCHIVSYFDYQKKVCQLLGLYNLLYNEDTQKFGFGHQVFVYFYCFWSLICLPTYLIFLKGFIIDQGSL
    LIYLLPCLYYKYLKRSMLGTLNEMAKVHRRLQFTMGTTFCVSVKRAFCSSWLIAIELVFVIYWQIESLQIGLQRFLVFSC
    LLGWHLQLLLLVNSYIWLQSIYVVMNQIFTQNHFTTKERWKMFKTLMKLHGILQSIQRDISHYFSVYICSVVVLQSGVFY
    RAVFEAGFDWDQNRLVLLRLEFWHIRYFGYLILLIGTILLVVCDYKSERDKFLKGVWNNQDLVQKSWSSISLNRCKQITD
    VLDLMILTGNTFRGMICTTVTLWELRIKQDTVLILEAACFMNYFFLLMFNVCLVPIIAIANGFEIGLEHRFLNYTFVESY
    TNDSDPQSITIDNLTMYSYVLSHALG
    CG32308-RB appears to me to be an unsupported gene fusion. The first couple of short introns have some EST support, so CG32308-RC might be real. I would ask that you split off the last two exons from CG32308-RB, and make them two separate genes as below, each with an additional short exon. 
    MEKHATARGFCLCHLICVWYQTGRIGLYLGFYNVGYSEQLRQFVCDEQLYVQIMAVVNLLASWLYLCFSHRWIYDQFVILLYVPLYIYFLILRRHLTKLLNECAGLHKSMQMIMGDRLCAKIHRECIYTLLLIIMSILRLLWQIRIYSVYQSIFIFGVAFIYHFELLFFGNYLIWLSCIFRSLNVFLAKDMRSDRLQILKGVLRQQTIIWRVHRTVSRYFALHIISFMIQPGIKICIILKCSGIQMNAQIISLILHLLLLGLFMIIASNLQKQHRTFQKSYIGLKDDPNYFVLKSWRLLQNRTLPQAFGVTFLRKREKVQYKQDVITMLFSNNCAVLHLTKQSLCLTFFGFKAIRFGISLSMLRSCLKTHIRELLLMLVVRLLFNKNATSQDYEYESQDDFNGNVTQTISQVYRFYFYDEFE
    MARLRFIVNIAKVLRFPLHFFGLLQLRFSDSQQVYQQRANCCRFLPAVFITMILFLHKLFSYELQKESKLVNLLQIEKRTLKSEIELWNENLTSIYIFLTLVCSLVNKNELWKLINEAQLTYKQLKSLLGKHLVLKCSYDVLIHGLLLILLLAVMVVDIIFFNWPKASGERNTVTLTELHQIFDYLMGIPRLLFVLIMAMRILYHLISAGWLQCLGMLRLQRNLKLYQFQLRSIFYNQKCENILAGHYFKVSYMYFLWMMPFRIAELMQFLKYDYDELVQKQKSQEDLEDEAIWEGEENSRQQNLQELLMKPLLILSWHFALWMLLLAAAYTQQKEYSTLMAKSWNFKSDENGCEMKEFLDEICWTGHAFKQLDILDLLFLSGISICDRQPVSICFITYKLRRNKFAYLSLNTIAGHFKLLLNLVVTAGIVYFVQQVELRHLQHYLEQV
 confirmation: hughrobe@XXXX
 realname: Hugh Robertson