Reference Report

From FlyBase-error@XXXXXXXXXXXXXXX Thu Apr 12 16:22:37 2001
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Date: Thu, 12 Apr 2001 08:22:39 \-0700 (PDT)
From: FlyBase-error@XXXXXXXXXXXXXXX
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Subject: FlyBase error report for CG13543 on Thu Apr 12 08:22:39 2001
Content-Length: 745
Error report from Gillian Millburn (gm119@XXXXXXXXXXXXXXX)
Gene or accession: CG13543
Release: 1
Gene annotation error
Gene CG13543 should be split.
Comments: Clyne et al., 2000, Science 287(5459): 1830--1834 (FBrf0126794)
describe 2
gustatory receptor genes, GR59D.1 (FBgn0041236) and GR59D.2 (FBgn0041235),
whose sequences match the N-terminal and C-terminal half of CG13543
respectively.
This suggests that CG13543 may need splitting in to 2 separate genes.
Sequences of GR59D.1 and GR59D.2 (worked out from coordinates given in
References and Notes of FBrf0126794) and alignments to CG13543 follow
in e-mail to flybase-updates,
Gillian
Browser: Mozilla/4.7 ^en (X11; I; SunOS 5.6 sun4u)
Accessed from: query.pl, /www/hedgehog_8001/htdocs
From gm119@XXXXXXXXXXXXXXX Thu Apr 12 16:27:25 2001
Envelope-to: gm119@XXXXXXXXXXXXXXX
Delivery-date: Thu, 12 Apr 2001 16:27:25 \+0100
To: flybase-updates@XXXXXXXXXXXXXXX
Subject: CG13543 alignments
X-Sun-Charset: US-ASCII
From: Gillian Millburn (Genetics) <gm119@XXXXXXXXXXXXXXX>
Date: Thu, 12 Apr 2001 16:27:21 \+0100
Content-Length: 12728
sequence of GR59D.1:
>GR59D.1,AC006245,68825-70050
atggctgacctgctcaaattgtgtttgagaatcgcatatgcctacggacggttgaccggcgtaatcaactttaagattg
atttgaaaacgggtcaagcgctagttaccagaggagctacgcttatttcagtgagcacacacttgctgatctttgccct
actcctctaccaaacaatgcgaaaaagtgtggtgaacgtcatgtggaagtatgccaattcccttcacgaatacgtgttc
ctggtcatagccggctttcgcgtagtctgtgtctttctggagctggtcagtcgatggtcgcagcgtcgcacctttgtga
ggctcttcaactcattccggagactgtatcagagaaatccggatataatccagtactgccgaaggagcatcgttagcaa
attcttttgcgtcacaatgacagagacactgcacatcatagtcaccttggccatgatgaggaatcggctgagcattgct
ctggctctgcgcatttgggccgtattgagtctgacggccataataaatgtaatcatcacgcagtactatgtggccaccg
cgtgtgtgcgaggacgatatgcgctcctgaacaaggatcttcaggcgattgtgaccgaatcccagtcgctggttcccaa
cggaggtggcgtctttgtgaccaagtgttgctacctagcggatcgcttggagcgaatagccaagtcccagtcggaccta
caggagctcgtcgaaaacttgtccacggcatacgaaggagaagtggtctgcctggtcatcacatactatctgaatatgc
tgggcacctcgtatctgctgttcagcattagcaagtatggcaattttgggaataacctgctcgtgatcatcactctttg
tggcattgtctacttcgtattttacgtcgtcgattgctggatcaacgcgtttaatgtgttttaccttttggatgcccat
gataagatggttaagttgctgaataagcgaactttgtttcagc!
caggtctggatcatcgattggaaatggttgtaagagcttcaaactctctttaatggtcgaagattttaattgaaccttc
ttgcagtttgaaaactttgctctgaacttggtgcggaatccattgaagctccatatgtacggccttttcgagtttggtc
gaggaacatcctttgccgtgtttaactccctgttaacacactcccttctcctcattcaatacgacgtgcaaaacttc
\#
sequence of GR59D.2:
>GR59D.2,AC006245,70261-71505
atggttgacttggtgaagacgattttgctcattgcctactggtatggccttgccgtgggagtgtccaacttcgaggtgg
actggctaactggagaagccattgccacccgaaggactacgatctatgcagcagtgcataatgccagccttatcactct
gctgattcttttcaatcttggcaataactcactgaaatccgagttcataagtgctcgatatctgcatgagtacttcttt
atgctcatgactgcggttcgaatctcggcagttctgctctcactgataaccagatggtatcagcgttccagattcattc
gaatttggaatcagatactagccctagttcgcgatagacctcaagtggttcgtgggcgctggtatcgtcgcagcattat
ccttaaatttgtgttctgtgtcctgtcagattctctgcacaccatatcggatgtgagtgcgcaacgaaagcggatcact
gctgacctgattgtcaaactgagcttactggccacactgaccaccatttttaacatgatcgtgtgccagtactacttgg
ccatggtgcaggtgattgggctctacaagattctgctccaagatctgcgatgcttggtgcgccaagctgaatgcatctg
ctccattcgcaatcggcgaggtggagtttactccattcagtgctgctcgttggcagatcagctggatctaattgccgaa
aggcattactttctgaaggacagacttgatgagatgtcggaccttttccagatacagagcctaagcatgagcctggtgt
actttttctccaccatgggctccatctactttagcgtctgttcgatcctgtacagctccacaggattcggctctacata
ctggggtcttctgctgattgtactatccacggcttccttctacatggacaattggttgtccgttaacattgggtttcat
attcgagatcagcaggacgaactattccgagtgctggcggatc!
gaactctgttctatcgggaattggacaaccgactggaggcagccgtaagttcagctttcgattttccccttctacgact
tttccttaatctgtttttattttttcagtttgagaacttccaactgcaactggccagtaaccggcatgaattctacgtt
atgggtctctttaaaatggaacgtggtcgtctaatcgctatgctaagctcagtgatcactcatactatggttcttgttc
agtgggaaattcaaaac
\#
alignments to CG13543:
1. GR59D.1
\----------
Query= GR59D.1,AC006245,68825-70050, 1226 bases, A9493664 checksum.
(1226 letters)
Database: na_gadfly.dros
14,217 sequences; 24,499,473 total letters.
Searching....10....20....30....40....50....60....70....80....90....100% done
Smallest
Sum
High Probability
Sequences producing High-scoring Segment Pairs: Score P(N) N
CG13543|FBgn0034823|CT32918|FBan0013543 last_updated:000321 4232 3.4e-187 1
CG15137|FBgn0032628|CT35034|FBan0015137 last_updated:000321 250 0.0036 1>CG13543|FBgn0034823|CT32918|FBan0013543 last_updated:000321
Length = 2046
Plus Strand HSPs:
Score = 4232 (635.0 bits), Expect = 3.4e-187, P = 3.4e-187
Identities = 848/850 (99%), Positives = 848/850 (99%), Strand = Plus / Plus
Query: 175 ATGCGAAAAAGTGTGGTGAACGTCATGTGGAAGTATGCCAATTCCCTTCACGAATACGTG 234
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 ATGCGAAAAAGTGTGGTGAACGTCATGTGGAAGTATGCCAATTCCCTTCACGAATACGTG 60
Query: 235 TTCCTGGTCATAGCCGGCTTTCGCGTAGTCTGTGTCTTTCTGGAGCTGGTCAGTCGATGG 294
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 TTCCTGGTCATAGCCGGCTTTCGCGTAGTCTGTGTCTTTCTGGAGCTGGTCAGTCGATGG 120
Query: 295 TCGCAGCGTCGCACCTTTGTGAGGCTCTTCAACTCATTCCGGAGACTGTATCAGAGAAAT 354
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 TCGCAGCGTCGCACCTTTGTGAGGCTCTTCAACTCATTCCGGAGACTGTATCAGAGAAAT 180
Query: 355 CCGGATATAATCCAGTACTGCCGAAGGAGCATCGTTAGCAAATTCTTTTGCGTCACAATG 414
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 CCGGATATAATCCAGTACTGCCGAAGGAGCATCGTTAGCAAATTCTTTTGCGTCACAATG 240
Query: 415 ACAGAGACACTGCACATCATAGTCACCTTGGCCATGATGAGGAATCGGCTGAGCATTGCT 474
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 ACAGAGACACTGCACATCATAGTCACCTTGGCCATGATGAGGAATCGGCTGAGCATTGCT 300
Query: 475 CTGGCTCTGCGCATTTGGGCCGTATTGAGTCTGACGGCCATAATAAATGTAATCATCACG 534
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 CTGGCTCTGCGCATTTGGGCCGTATTGAGTCTGACGGCCATAATAAATGTAATCATCACG 360
Query: 535 CAGTACTATGTGGCCACCGCGTGTGTGCGAGGACGATATGCGCTCCTGAACAAGGATCTT 594
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 CAGTACTATGTGGCCACCGCGTGTGTGCGAGGACGATATGCGCTCCTGAACAAGGATCTT 420
Query: 595 CAGGCGATTGTGACCGAATCCCAGTCGCTGGTTCCCAACGGAGGTGGCGTCTTTGTGACC 654
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 CAGGCGATTGTGACCGAATCCCAGTCGCTGGTTCCCAACGGAGGTGGCGTCTTTGTGACC 480
Query: 655 AAGTGTTGCTACCTAGCGGATCGCTTGGAGCGAATAGCCAAGTCCCAGTCGGACCTACAG 714
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 AAGTGTTGCTACCTAGCGGATCGCTTGGAGCGAATAGCCAAGTCCCAGTCGGACCTACAG 540
Query: 715 GAGCTCGTCGAAAACTTGTCCACGGCATACGAAGGAGAAGTGGTCTGCCTGGTCATCACA 774
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 GAGCTCGTCGAAAACTTGTCCACGGCATACGAAGGAGAAGTGGTCTGCCTGGTCATCACA 600
Query: 775 TACTATCTGAATATGCTGGGCACCTCGTATCTGCTGTTCAGCATTAGCAAGTATGGCAAT 834
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 TACTATCTGAATATGCTGGGCACCTCGTATCTGCTGTTCAGCATTAGCAAGTATGGCAAT 660
Query: 835 TTTGGGAATAACCTGCTCGTGATCATCACTCTTTGTGGCATTGTCTACTTCGTATTTTAC 894
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 661 TTTGGGAATAACCTGCTCGTGATCATCACTCTTTGTGGCATTGTCTACTTCGTATTTTAC 720
Query: 895 GTCGTCGATTGCTGGATCAACGCGTTTAATGTGTTTTACCTTTTGGATGCCCATGATAAG 954
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 721 GTCGTCGATTGCTGGATCAACGCGTTTAATGTGTTTTACCTTTTGGATGCCCATGATAAG 780
Query: 955 ATGGTTAAGTTGCTGAATAAGCGAACTTTGTTTCAGCCAGGTCTGGATCATCGATTGGAA 1014
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 781 ATGGTTAAGTTGCTGAATAAGCGAACTTTGTTTCAGCCAGGTCTGGATCATCGATTGGAA 840
Query: 1015 ATGGTTGTAA 1024
|||||| ||
Sbjct: 841 ATGGTTAGAA 850
2. GR59D.2
\----------
Query= GR59D.2,AC006245,70261-71505, 1245 bases, 10CA15D6 checksum.
(1245 letters)
Database: na_gadfly.dros
14,217 sequences; 24,499,473 total letters.
Searching....10....20....30....40....50....60....70....80....90....100% done
Smallest
Sum
High Probability
Sequences producing High-scoring Segment Pairs: Score P(N) N
CG13543|FBgn0034823|CT32918|FBan0013543 last_updated:000321 5176 1.5e-260 2
CG17784|FBgn0039192|CT33005|FBan0017784 last_updated:000321 190 0.85 1>CG13543|FBgn0034823|CT32918|FBan0013543 last_updated:000321
Length = 2046
Plus Strand HSPs:
Score = 5176 (776.6 bits), Expect = 1.5e-260, Sum P(2) = 1.5e-260
Identities = 1036/1037 (99%), Positives = 1036/1037 (99%), Strand = Plus / Plus
Query: 1 ATGGTTGACTTGGTGAAGACGATTTTGCTCATTGCCTACTGGTATGGCCTTGCCGTGGGA 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 853 ATGGTTGACTTGGTGAAGACGATTTTGCTCATTGCCTACTGGTATGGCCTTGCCGTGGGA 912
Query: 61 GTGTCCAACTTCGAGGTGGACTGGCTAACTGGAGAAGCCATTGCCACCCGAAGGACTACG 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 913 GTGTCCAACTTCGAGGTGGACTGGCTAACTGGAGAAGCCATTGCCACCCGAAGGACTACG 972
Query: 121 ATCTATGCAGCAGTGCATAATGCCAGCCTTATCACTCTGCTGATTCTTTTCAATCTTGGC 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 973 ATCTATGCAGCAGTGCATAATGCCAGCCTTATCACTCTGCTGATTCTTTTCAATCTTGGC 1032
Query: 181 AATAACTCACTGAAATCCGAGTTCATAAGTGCTCGATATCTGCATGAGTACTTCTTTATG 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1033 AATAACTCACTGAAATCCGAGTTCATAAGTGCTCGATATCTGCATGAGTACTTCTTTATG 1092
Query: 241 CTCATGACTGCGGTTCGAATCTCGGCAGTTCTGCTCTCACTGATAACCAGATGGTATCAG 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1093 CTCATGACTGCGGTTCGAATCTCGGCAGTTCTGCTCTCACTGATAACCAGATGGTATCAG 1152
Query: 301 CGTTCCAGATTCATTCGAATTTGGAATCAGATACTAGCCCTAGTTCGCGATAGACCTCAA 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1153 CGTTCCAGATTCATTCGAATTTGGAATCAGATACTAGCCCTAGTTCGCGATAGACCTCAA 1212
Query: 361 GTGGTTCGTGGGCGCTGGTATCGTCGCAGCATTATCCTTAAATTTGTGTTCTGTGTCCTG 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1213 GTGGTTCGTGGGCGCTGGTATCGTCGCAGCATTATCCTTAAATTTGTGTTCTGTGTCCTG 1272
Query: 421 TCAGATTCTCTGCACACCATATCGGATGTGAGTGCGCAACGAAAGCGGATCACTGCTGAC 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1273 TCAGATTCTCTGCACACCATATCGGATGTGAGTGCGCAACGAAAGCGGATCACTGCTGAC 1332
Query: 481 CTGATTGTCAAACTGAGCTTACTGGCCACACTGACCACCATTTTTAACATGATCGTGTGC 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1333 CTGATTGTCAAACTGAGCTTACTGGCCACACTGACCACCATTTTTAACATGATCGTGTGC 1392
Query: 541 CAGTACTACTTGGCCATGGTGCAGGTGATTGGGCTCTACAAGATTCTGCTCCAAGATCTG 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1393 CAGTACTACTTGGCCATGGTGCAGGTGATTGGGCTCTACAAGATTCTGCTCCAAGATCTG 1452
Query: 601 CGATGCTTGGTGCGCCAAGCTGAATGCATCTGCTCCATTCGCAATCGGCGAGGTGGAGTT 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1453 CGATGCTTGGTGCGCCAAGCTGAATGCATCTGCTCCATTCGCAATCGGCGAGGTGGAGTT 1512
Query: 661 TACTCCATTCAGTGCTGCTCGTTGGCAGATCAGCTGGATCTAATTGCCGAAAGGCATTAC 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1513 TACTCCATTCAGTGCTGCTCGTTGGCAGATCAGCTGGATCTAATTGCCGAAAGGCATTAC 1572
Query: 721 TTTCTGAAGGACAGACTTGATGAGATGTCGGACCTTTTCCAGATACAGAGCCTAAGCATG 780
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1573 TTTCTGAAGGACAGACTTGATGAGATGTCGGACCTTTTCCAGATACAGAGCCTAAGCATG 1632
Query: 781 AGCCTGGTGTACTTTTTCTCCACCATGGGCTCCATCTACTTTAGCGTCTGTTCGATCCTG 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1633 AGCCTGGTGTACTTTTTCTCCACCATGGGCTCCATCTACTTTAGCGTCTGTTCGATCCTG 1692
Query: 841 TACAGCTCCACAGGATTCGGCTCTACATACTGGGGTCTTCTGCTGATTGTACTATCCACG 900
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1693 TACAGCTCCACAGGATTCGGCTCTACATACTGGGGTCTTCTGCTGATTGTACTATCCACG 1752
Query: 901 GCTTCCTTCTACATGGACAATTGGTTGTCCGTTAACATTGGGTTTCATATTCGAGATCAG 960
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1753 GCTTCCTTCTACATGGACAATTGGTTGTCCGTTAACATTGGGTTTCATATTCGAGATCAG 1812
Query: 961 CAGGACGAACTATTCCGAGTGCTGGCGGATCGAACTCTGTTCTATCGGGAATTGGACAAC 1020
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1813 CAGGACGAACTATTCCGAGTGCTGGCGGATCGAACTCTGTTCTATCGGGAATTGGACAAC 1872
Query: 1021 CGACTGGAGGCAGCCGT 1037
||||||||||||||| |
Sbjct: 1873 CGACTGGAGGCAGCCTT 1889
Score = 735 (110.3 bits), Expect = 1.5e-260, Sum P(2) = 1.5e-260
Identities = 147/147 (100%), Positives = 147/147 (100%), Strand = Plus / Plus
Query: 1099 TTTGAGAACTTCCAACTGCAACTGGCCAGTAACCGGCATGAATTCTACGTTATGGGTCTC 1158
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1888 TTTGAGAACTTCCAACTGCAACTGGCCAGTAACCGGCATGAATTCTACGTTATGGGTCTC 1947
Query: 1159 TTTAAAATGGAACGTGGTCGTCTAATCGCTATGCTAAGCTCAGTGATCACTCATACTATG 1218
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1948 TTTAAAATGGAACGTGGTCGTCTAATCGCTATGCTAAGCTCAGTGATCACTCATACTATG 2007
Query: 1219 GTTCTTGTTCAGTGGGAAATTCAAAAC 1245
|||||||||||||||||||||||||||
Sbjct: 2008 GTTCTTGTTCAGTGGGAAATTCAAAAC 2034