Subject: please merge bl (bancal) and Hrb57A
Hello,
Could you please merge bl and Hrb57A?
I have attached the alignments for bl and Hrb57A. There are some
differences, but I think they are referring to the same gene.
A note added in proof in FBrf0126775 (associated with Hrb57A
accession AJ238947) (Hovemann et al.2000) reads:
'Independently, the cloning of Hrb57A was reported recently
by Charroux et al. (1999).'
They are referring to FBrf0111834, which is the reference for accession
AF142631 for bl.
Leyla
================================================================================
blHrb57AClW:
CLUSTAL W (1.8) Multiple Sequence Alignments
Sequence format is Pearson
Sequence 1: gi|6687391|emb|CAB64936.1| 496 aa
Sequence 2: gi|6006748|gb|AAF00596.1|AF142 490 aa
Start of Pairwise alignments
Aligning...
Sequences ( 1:2 ) Aligned. Score: 96
Guide tree file created:
/net/nfs0/vol1/production/w3nobody/tmp/12778959377849.dnd
Start of Multiple Alignment
There are 1 groups
Aligning...
Group 1: Sequences: 2  Score:7799 
Alignment Score 2901
CLUSTAL-Alignment file created
/net/nfs0/vol1/production/w3nobody/tmp/12778959377849.aln
CLUSTAL W (1.8) multiple sequence alignment
gi|6687391|emb|CAB64936.1|
MKREMNDEGEGPQDQKRNRRNEETVRILIPSSIAGAVIGKGGQHIQKMRT 50
gi|6006748|gb|AAF00596.1|AF142
MKREMNDEGEGPQDQKRNRRNEETVRILIPSSIAGAVIGKGGQHIQKMRT 50
gi|6687391|emb|CAB64936.1|
QYKATVSVDDSQGPERTIQISADIESTLEIITEMLKYFEERDEDFDVRLL 100
gi|6006748|gb|AAF00596.1|AF142
QYKATVSVDDSQGPERTIQISADIESTLEIITEMLKYFEERDEDFDVRLL 100
gi|6687391|emb|CAB64936.1|
IHQSLAGCVIGKGGQKIKEIRDRIGCRFLKVFSNVAPQSTDRVVQTVGKQ 150
gi|6006748|gb|AAF00596.1|AF142
IHQSLAGCVIGKGGQKIKEIRDRIGCRFLKVFSNVAPQSTDRVVQTVGKQ 150
gi|6687391|emb|CAB64936.1|
SQVIEAVREVITLTRDTPIKGAIHNYDPMNFDRVYADEYGGYGTGSGSTR 200
gi|6006748|gb|AAF00596.1|AF142
SQVIEAVREVITLTRDTPIKGAIHNYDPMNFDRVYADEYGGYGTGSGSTR 200
gi|6687391|emb|CAB64936.1|
PSQRGNNRNGGGAGGVAGGAAGGNGGGFNAGGARGNAGGRGGADRFGGAA 250
gi|6006748|gb|AAF00596.1|AF142
PSQRGNNRNGGGAGGVAGGAAG-NGGGFNAGGARGNAGGRGGRSAS-AAP 248
gi|6687391|emb|CAB64936.1|
GGAVAGAGMGQRDNPFINPWANGGGGDVDGFGNNPGGAGGFAGNSFGGGA 300
gi|6006748|gb|AAF00596.1|AF142
GGAVAGAGMGQRDNPFINPWANGGGGDVDGFGNNAGGAGGFAGNSFGGGA 298
gi|6687391|emb|CAB64936.1|
GGPFGGGSFGNNGFGGGPSDFGGNSGNFGQAQGTNSLPSLGSFSQNQGGT 350
gi|6006748|gb|AAF00596.1|AF142
GGPFGGGSFGNNGFGGGPSDFGGNSGNFGQAQGTNSLPSLGSFSQNQGGT 348
gi|6687391|emb|CAB64936.1|
SSLPSLGSFGQNPGGPGGLGNGLSGGANGGVGTLGGANGAGGFNAVGGAN 400
gi|6006748|gb|AAF00596.1|AF142
SSLPSLGSFGQNPGGPGGLGNGLSGGANGGVGALGGANGAG-FNAVGGAN 397
gi|6687391|emb|CAB64936.1|
GGPNGSPNAATNVPQGHDPNNSTQVTIPKELAGAIIGKGGGRIRRIRNES 450
gi|6006748|gb|AAF00596.1|AF142
GGPNGSPNAATNVPQGHDPNNSTQVTIPKELAGAIIGKGGGRIRRIRNES 447
gi|6687391|emb|CAB64936.1|
SAYITIDEPLPNSNDRIITISGTPKQIQMAQYLLQQSVHENGRRNI 496
gi|6006748|gb|AAF00596.1|AF142
SAYITIDEPLPNSNDRIITISGTPKQIQMAQYLLQQRLVSQSE--- 490
\************************************ : .:..
================================================================================
Hrb57AblBLN:
BLAST 2 SEQUENCES RESULTS VERSION BLASTN 2.0.11 Jan-20-2000
Sequence 1gi 6006747 Length 2124 (1 ..
2124)
Sequence 2gi 6687390 Drosophila melanogaster mRNA for Length 2040 (1 ..
Hrb57A ribonucleoprotein 2040)
1
 NOTE:The  statistics (bitscore and expect value) is calculated based on the
size of nr database
Score = 2936 bits (1527), Expect = 0.0
Identities = 1605/1630 (98%), Positives = 1605/1630 (98%), Gaps = 12/1630 (0%)
Query: 52
ctctagtgtgtttgtgctatacatattttgaataatattttaccagccagtgtttagtgg 111
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1
ctctagtgtgtttgtgctatacatattttgaataatattttaccagccagtgtttagtgg 60
Query: 112
cggacaaaatcgtgttgaataccaattgaaagttaagtgattaagttcggtggcatcaaa 171
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61
cggacaaaatcgtgttgaataccaattgaaagttaagtgattaagttcggtggcatcaaa 120
Query: 172
gtcttcgtagctgaaggaaaacaaaggcatcc-gatagagagactgagaatgaagcgtga 230
||||||||||||||||||||||||||||||||
|||||||||||||||||||||||||||
Sbjct: 121
gtcttcgtagctgaaggaaaacaaaggcatcccgatagagagactgagaatgaagcgtga 180
heterogeneous nuclear ribonucle> 1
M K R E
Query: 231
aatgaacgatgaaggggagggaccacaggaccagaagcgcaatcgccgcaacgaggagac 290
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181
aatgaacgatgaaggggagggaccacaggaccagaagcgcaatcgccgcaacgaggagac 240
heterogeneous nuclear ribonucle> 5 M N D E G E G P Q D Q K R
N R R N E E T
Query: 291
cgttcgcatcctgattccgagcagtattgctggggctgtcattggcaaaggaggacagca 350
|||||||||
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241
cgttcgcatactgattccgagcagtattgctggggctgtcattggcaaaggaggacagca 300
heterogeneous nuclear ribonucle> 25 V R I L I P S S I A G A V
I G K G G Q H
Query: 351
cattcagaagatgaggactcagtataaagccactgtgtctgtcgacgattcccaaggccc 410
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301
cattcagaagatgaggactcagtataaagccactgtgtctgtcgacgattcccaaggccc 360
heterogeneous nuclear ribonucle> 45 I Q K M R T Q Y K A T V S
V D D S Q G P
Query: 411
cgaacgaaccatccaaatatcggcggatatagagtccacattggagattatcaccgaaat 470
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361
cgaacgaaccatccaaatatcggcggatatagagtccacattggagattatcaccgaaat 420
heterogeneous nuclear ribonucle> 65 E R T I Q I S A D I E S T
L E I I T E M
Query: 471
gctgaaatactttgaggagcgcgacgaggactttgatgtgcgtctacttatacaccagag 530
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421
gctgaaatactttgaggagcgcgacgaggactttgatgtgcgtctacttatacaccagag 480
heterogeneous nuclear ribonucle> 85 L K Y F E E R D E D F D V
R L L I H Q S
Query: 531
cttggccggctgtgtcattggcaaaggtggacaaaagatcaaggagatccgcgatcgcat 590
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481
cttggccggctgtgtcattggcaaaggtggacaaaagatcaaggagatccgcgatcgcat 540
heterogeneous nuclear ribonucle> 105 L A G C V I G K G G Q K I
K E I R D R I
Query: 591
cggctgccgctttttgaaggtcttctcgaatgtggcaccacagagcacagatcgagtggt 650
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541
cggctgccgctttttgaaggtcttctcgaatgtggcaccacagagcacagatcgagtggt 600
heterogeneous nuclear ribonucle> 125 G C R F L K V F S N V A P
Q S T D R V V
Query: 651
gcagaccgtgggcaagcagagccaggtcatcgaagcggtgcgtgaggtgatcacacttac 710
|||||||||
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601
gcagaccgttggcaagcagagccaggtcatcgaagcggtgcgtgaggtgatcacacttac 660
heterogeneous nuclear ribonucle> 145 Q T V G K Q S Q V I E A V
R E V I T L T
Query: 711
acgggacactcccatcaagggggcgatacataactatgatcctatgaactttgatcgcgt 770
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 661
acgggacactcccatcaagggggcgatacataactatgatcctatgaactttgatcgcgt 720
heterogeneous nuclear ribonucle> 165 R D T P I K G A I H N Y D
P M N F D R V
Query: 771
atatgccgatgagtacggtggctatggcactggaagtggcagtacccgtccaagtcagcg 830
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 721
atatgccgatgagtacggtggctatggcactggaagtggcagtacccgtccaagtcagcg 780
heterogeneous nuclear ribonucle> 185 Y A D E Y G G Y G T G S G
S T R P S Q R
Query: 831
gggaaacaatcgtaacggaggaggcgctggaggtgttgccggcggcgcagc---tggcaa 887
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 781
gggaaacaatcgtaacggaggaggcgctggaggtgttgccggcggcgcagccggtggcaa 840
heterogeneous nuclear ribonucle> 205 G N N R N G G G A G G V A
G G A A G G N
Query: 888
tggtggaggattcaatgctggcggtgcacgcggcaatgctggcggacgtggcgga--cga 945
||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 841
tggtggaggattcaatgctggcggtgcacgcggcaatgctggcggacgtggcggagctga 900
heterogeneous nuclear ribonucle> 225 G G G F N A G G A R G N A
G G R G G A D
Query: 946
tcagcttcggcggcnc--ctggtggagctgtggccggtgctggaatgggacagcgcgaca 1003
|| |||| |||||| |
||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 901
tc-gctttggcggcgccgctggtggagctgtggccggtgctggaatggggcagcgcgaca 959
heterogeneous nuclear ribonucle> 245 R F G G A A G G A V A G A
G M G Q R D
Query: 1004
atccgttcatcaatccgtgggccaatggcggtggcggtgatgtagatggttttggcaaca 1063
||||||||||
|||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 960
atccgttcattaatccgtgggccaatggcggtggcggtgatgtagatggttttggcaaca 1019
heterogeneous nuclear ribonucle> 264 N P F I N P W A N G G G G D
V D G F G N
Query: 1064
acgctggtggtgctggtggatttgccggtaacagctttggcggtggngccggtggaccat 1123
||
||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 1020
accctggtggtgctggtggatttgccggtaacagctttggcggtggcgccggtggaccat 1079
heterogeneous nuclear ribonucle> 284 N P G G A G G F A G N S F G
G G A G G P
Query: 1124
tcggaggtggtagctttggcaacaacggttttggaggtggacccagcgactttggcggaa 1183
|||||||||||||||||||||||||||||||
||||||||||||||||||||||||||||
Sbjct: 1080
tcggaggtggtagctttggcaacaacggtttcggaggtggacccagcgactttggcggaa 1139
heterogeneous nuclear ribonucle> 304 F G G G S F G N N G F G G G
P S D F G G
Query: 1184
attccggaaactttggacaggcccagggcactaacagtctgccaagcctaggtagcttca 1243
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 1140
attccggaaactttggacaggcccagggcactaacagtctgccaagccttggtagcttca 1199
heterogeneous nuclear ribonucle> 324 N S G N F G Q A Q G T N S L
P S L G S F
Query: 1244
gccagaaccagggtggcactagcagcctgcccagcttgggcagctttggtcagaatccag 1303
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1200
gccagaaccagggtggcactagcagcctgcccagcttgggcagctttggtcagaatccag 1259
heterogeneous nuclear ribonucle> 344 S Q N Q G G T S S L P S L G
S F G Q N P
Query: 1304
gcggacccggtggattgggtaacggactgagtggcggtgctaatggtggcgttggagccc 1363
|||||||||||||||||||||||||||||||||||||||||||||| ||||||||| |||
Sbjct: 1260
gcggacccggtggattgggtaacggactgagtggcggtgctaatggcggcgttggaaccc 1319
heterogeneous nuclear ribonucle> 364 G G P G G L G N G L S G G A
N G G V G T
Query: 1364
tgggtggtgctaatggagcc---ggctttaatgctgtcggtggagctaacggtgggccga 1420
||||||||||||||||||||
|||||||||||||||||||||||||||||||||||||
Sbjct: 1320
tgggtggtgctaatggagccggtggctttaatgctgtcggtggagctaacggtgggccga 1379
heterogeneous nuclear ribonucle> 384 L G G A N G A G G F N A V G
G A N G G P
Query: 1421
atggcagcccaaatgccgcgacaaatgtgcctcagggtcatgatcccaacaacagcacac 1480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1380
atggcagcccaaatgccgcgacaaatgtgcctcagggtcatgatcccaacaacagcacac 1439
heterogeneous nuclear ribonucle> 404 N G S P N A A T N V P Q G H
D P N N S T
Query: 1481
aggtcaccattccaaaagagctggctggtgccatcattggtaagggaggtggccgcatcc 1540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1440
aggtcaccattccaaaagagctggctggtgccatcattggtaagggaggtggccgcatcc 1499
heterogeneous nuclear ribonucle> 424 Q V T I P K E L A G A I I G
K G G G R I
Query: 1541
gtcgcatccgcaacgagtccagtgcgtacatcaccatcgacgagcccctgccaaactcga 1600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1500
gtcgcatccgcaacgagtccagtgcgtacatcaccatcgacgagcccctgccaaactcga 1559
heterogeneous nuclear ribonucle> 444 R R I R N E S S A Y I T I D
E P L P N S
Query: 1601
acgatcgtatcatcaccatctcgggcacgccgaagcaaatacaaatggcccagtatctgc 1660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1560
acgatcgtatcatcaccatctcgggcacgccgaagcaaatacaaatggcccagtatctgc 1619
heterogeneous nuclear ribonucle> 464 N D R I I T I S G T P K Q I
Q M A Q Y L
Query: 1661 tgcaacagag 1670
||||||||||
Sbjct: 1620 tgcaacagag 1629
heterogeneous nuclear ribonucle> 484 L Q Q S
Score = 769 bits (400), Expect = 0.0
Identities = 410/415 (98%), Positives = 410/415 (98%)
ImageImageImageImageImage
Query: 1692
agaacgtacacgagaatggcaggcgaaacatttaagtgggcaaggacttgaacagctaca 1751
|||
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1626
agagcgtacacgagaatggcaggcgaaacatttaagtgggcaaggacttgaacagctaca 1685
heterogeneous nuclear ribonucle> 486 Q S V H E N G R R N I ^^^
Query: 1752
acagcaatagcaacaccattcgacaaaacaacaaattcaacaactacaataaccatcgag 1811
|||||||||||||||||||||||||
||||||||||||||||||||||||||||||||||
Sbjct: 1686
acagcaatagcaacaccattcgacataacaacaaattcaacaactacaataaccatcgag 1745
Query: 1812
aattgctgcgtttcacgtttaaatttaaatgtactaaaaggaagaactggcgaacgccca 1871
|| |||||||||||||||||||||||||||||||||||||
| |||||||||||||||||
Sbjct: 1746
aagtgctgcgtttcacgtttaaatttaaatgtactaaaagaaggaactggcgaacgccca 1805
Query: 1872
gggcaagagagcatcctccaaatacgaaagaaatttatgtatttcttcactaaatttaag 1931
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1806
gggcaagagagcatcctccaaatacgaaagaaatttatgtatttcttcactaaatttaag 1865
Query: 1932
tgaatattatacgccccaaatggataagaaactggaaccgagttgccccaaccatcagcg 1991
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1866
tgaatattatacgccccaaatggataagaaactggaaccgagttgccccaaccatcagcg 1925
Query: 1992
cctgcatccccccattcatcctcgtcgtcaccagtttgcaatttgggggaaagtcaacat 2051
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1926
cctgcatccccccattcatcctcgtcgtcaccagtttgcaatttgggggaaagtcaacat 1985
Query: 2052
taaaactctgtatgataagaagaatgaacaaataaagtaaacataaacttgatat 2106
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1986
taaaactctgtatgataagaagaatgaacaaataaagtaaacataaacttgatat 2040
CPU time: 0.12 user secs. 0.04 sys. secs 0.16 total secs. Gapped Lambda K H
1.33 0.621 1.12 Matrix: blastn  matrix:1  \-2 Gap Penalties: Existence: 5,
Extension: 2 Number of Hits to DB: 17 Number of Sequences: 0 Number of
extensions: 17 Number of successful extensions: 9 Number of sequences better
than 10.0: 1 length of query: 2124 length of database: 706,884,452 effective
HSP length: 24 effective length of query: 2100 effective length of database:
698,897,060 effective search space: 1467683826000 effective search space
used: 1467683826000 T: 0 A: 0 X1: 6 (11.5 bits) X2: 26 (50.0 bits) S1: 12
(23.8 bits) S2: 19 (37.2 bits)
================================================================================