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From rd120@XXXXXXXXXXXXXXX Mon Feb 10 10:03:04 2003
To: nicholas.sokol@XXXXXXXXXXXXXXX
Subject: Helping FlyBase: ADRC-10817
Dear Nicholas,
We are currently curating the abstracts for the upcoming 44th
(Chicago) Annual Drosophila Research Conference, for FlyBase.
I am writing in connection with your abstract:
Functional Analysis of microRNAs in Drosophila.
You mention genes that are new to FlyBase, mir-34, mir-100 and mir-125.
Do you know which of the Genome Project CG annotations your gene
corresponds to? All the CGs have corresponding gene records in FlyBase
already and we don't like to make duplicate records for what is
actually the same gene unless we can't avoid it. Given the nature of
these genes, it is not unlikely that they won't have corresponding CG/CR
genes, in which case perhaps you could send us sequence so that we
could get them correctly annotated for the genome annotation project.
Thank you very much for your help,
with best wishes,
Rachel.
\----------------------------------------------------------------------
Rachel Drysdale, Ph.D.
FlyBase (Cambridge),
Department of Genetics,
University of Cambridge,
Downing Street, email: rd120@XXXXXXXXXXXXXXX
Cambridge, CB2 3EH, Ph : 01223-333963
UK. FAX: 01223-333992
FlyBase: http://fly.ebi.ac.uk:7081/
\----------------------------------------------------------------------
From Nicholas.S.Sokol@XXXXXXXXXXXXXXX Tue Feb 18 02:52:48 2003
Subject: Re: Helping FlyBase: ADRC-10817
To: rd120@XXXXXXXXXXXXXXX
Dear Rachel,
Here is some hopefully useful information about the genes listed above:
mir-34
sequence: GGCAGTGTGGTTAGCTGGTTG
predicted hairpin precursor:
TTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAATTATTGCCGTTGACAATTCACAGCCACTATCTTC
ACTGCCGCCGCGACAAGCTAA
location:AE003685
mir-34 was identified based on it sequence similarity to C. elegans mir-34,
reported in Lau, Lim, Weinstein, and Bartel, 2001, SCIENCE, 294:858-862, and
its expression in flies has been confirmed by Northern blot.
mir-100
sequence: AACCCGTAAATCCGAACTTGTG
predicted hairpin precursor:
CCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAAT
location: AE003659
mir-100 was identified based on it sequence similarity to human mir-100,
reported in Mourelatos et al., 2002, GENES AND DEVELOPMENT, 16:720-728, and
its expression in flies has been confirmed by Northern blot.
mir-125
sequence: TCCCTGAGACCCTAACTTGTGA
predicted hairpin precursor:
GTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGA
location: AE003659
mir-125 was identified based on it sequence similarity to mouse mir-125,
reported in Lagos-Quintana, Rauhut, Yalcin, Meyer, Lendeckel and Tuschl, 2002,
CURRENT BIOLOGY, 12: 735-739, and its expression in flies has been confirmed
by Northern blot. A Northern blot of mir-125 expression in flies has also
been published in the Current Biology paper mentioned above.
Incidentally, mir-100 and mir-125 flank the fly let-7 sequence: mir-100 is
about 500 bp upstream of let-7 and mir-125 is about 300 bp downstream of
let-7. All 3 have similar expression patterns raising the possibility that
they are contranscribed from the same promoter.
Hope this helps,
Nick
_____________________
Nicholas Sokol, Ph.D.
Dartmouth Medical School
Department of Genetics
Vail 608
Hanover, NH 03755
Phone: 603/650-1940
Fax: 603/650-1188
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