cluster # 5340

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Oryza sativa
cluster # 5340 cluster # 5340 Sequences # 3 consensus # 3

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_5340#0 length = 659 sequences # 1

consensus_5340#1 length = 603 sequences # 1
consensus_5340#2 length = 282 sequences # 1

consensusID : consensus_5340#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 659
fasta sequence

                              [TTATATCCATCACTGTAGGACTTGGGTTCAAGCTTTCCCTAGCCCCTTTTCATCAATGGACTCCTGACGTCTACGAAGGAGTGTGGTTCGTTCGACAAATTCCTACCTCTATATCTATCTCTGAGGTGTTTGGGTTTTGCAAAACTCCATAGATATGCAGAAGAGAAATGCTATCCCCACTCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAAGCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAATTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGGAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAATCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAAAGGATTGAAAAAGTCAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACG]

[+] EMBL AK062864             [TTATATCCATCACTGTAGGACTTGGGTTCAAGCTTTCCCTAGCCCCTTTTCATCAATGGACTCCTGACGTCTACGAAGGAGTGTGGTTCGTTCGACAAATTCCTACCTCTATATCTATCTCTGAGGTGTTTGGGTTTTGCAAAACTCCATAGATATGCAGAAGAGAAATGCTATCCCCACTCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAAGCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAATTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGGAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAATCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAAAGGATTGAAAAAGTCAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACG]




>consensus_5340#0
TTATATCCATCACTGTAGGACTTGGGTTCAAGCTTTCCCTAGCCCCTTTTCATCAATGGA
CTCCTGACGTCTACGAAGGAGTGTGGTTCGTTCGACAAATTCCTACCTCTATATCTATCT
CTGAGGTGTTTGGGTTTTGCAAAACTCCATAGATATGCAGAAGAGAAATGCTATCCCCAC
TCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAAT
TAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAA
GCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAA
TTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGG
AGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAAT
CAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAA
AGGATTGAAAAAGTCAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGA
TTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACG

consensusID : consensus_5340#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 603
fasta sequence

                              [NNNGNNNNNNCTCCATAGATATGCAGAAGAGAAATGCTATCCCCACTCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAAGCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAATTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGGAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAATCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAAAGGATTGAAAAAGTCAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACGCGAGGAAGGTAATCAAAAAAGAAAGAAGACAAGTTCTTCTTTCTTTTATCACTTAGGAGCCGTGCGAGATGAAAGTCT]

[-] EMBL CF196106             [NNNGNNNNNNCTCCATAGATATGCAGAAGAGAAATGCTATCCCCACTCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAATTAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAAGCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAATTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGGAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAATCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAAAGGATTGAAAAAGTCAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACGCGAGGAAGGTAATCAAAAAAGAAAGAAGACAAGTTCTTCTTTCTTTTATCACTTAGGAGCCGTGCGAGATGAAAGTCT]




>consensus_5340#1
NNNGNNNNNNCTCCATAGATATGCAGAAGAGAAATGCTATCCCCACTCCGACCAAGACAG
AACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAATTAAGGTGAAGCAGG
GTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAAGCTCGTTATTACGG
GTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAATTATCGACGTAGAT
GCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGTAATAGGAGCATCCGTTGACA
AAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAATCAAATCAGATGGTT
CTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGTCGAAAGGATTGAAAAAGT
CAGTCATTCACAACCACTGATGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTT
TCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACGCGAGGAAGGTAATCA
AAAAAGAAAGAAGACAAGTTCTTCTTTCTTTTATCACTTAGGAGCCGTGCGAGATGAAAG
TCT

consensusID : consensus_5340#2
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 282
fasta sequence

                              [AGACACCACGCGTGCCAGTGGATGCATGCTGCATGGGGCTGATTGGGGAACGAATGCAAATGCAAGATGGGTTGCTGATGTTGCTGCAAACACTGTGTGCTGGACTTGGCTGCCTGACAGGAACCAAGGTGCGAAAGGGATTGGAATAAAGTGCAGTGCATGTGCACAACCACTGGATGGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACGCGAGGAAGGTAAAAAAAAA]

[+] EMBL BI803733             [AGACACCACGCGTGCCAGTGGATGCATGCTGCATGGGGCTGATTGGGGAACGAATGCAAATGCAAGATGGGTTGCTGATGTTGCTGCAAACACTGTGTGCTGGACTTGGCTGCCTGACAGGAACCAAGGTGCGAAAGGGATTGGAATAAAGTGCAGTGCATGTGCACAACCACTGGATGGAAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCTTATACATACGCGAGGAAGGTAAAAAAAAA]




>consensus_5340#2
AGACACCACGCGTGCCAGTGGATGCATGCTGCATGGGGCTGATTGGGGAACGAATGCAAA
TGCAAGATGGGTTGCTGATGTTGCTGCAAACACTGTGTGCTGGACTTGGCTGCCTGACAG
GAACCAAGGTGCGAAAGGGATTGGAATAAAGTGCAGTGCATGTGCACAACCACTGGATGG
AAGGATTCCTCGAAAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGA
ATGGATTCGGTCTTATACATACGCGAGGAAGGTAAAAAAAAA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_5340#0      TTATATCCATCACTGTAGGACTTGGGTTCAAGCTTTCCCTAGCCCCTTTTCATCAATGGA 60
consensus_5340#1      ------------------------------------------------------------
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      CTCCTGACGTCTACGAAGGAGTGTGGTTCGTTCGACAAATTCCTACCTCTATATCTATCT 120
consensus_5340#1      ------------------------------------------------------------
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      CTGAGGTGTTTGGGTTTTGCAAAACTCCATAGATATGCAGAAGAGAAATGCTATCCCCAC 180
consensus_5340#1      --------------NNNGNNNNNNCTCCATAGATATGCAGAAGAGAAATGCTATCCCCAC 46
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      TCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAAT 240
consensus_5340#1      TCCGACCAAGACAGAACTTTTACCAAAAGTTTATTGTGATCTTTTTGTTCAAATAACAAT 106
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      TAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAA 300
consensus_5340#1      TAAGGTGAAGCAGGGTCAGGAACAACGAATCTCTTTATGATAAACAGATCCATTTTGCAA 166
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      GCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAA 360
consensus_5340#1      GCTCGTTATTACGGGTAGTTCCTACAAAGAATCGGACTAATGACGTATACAATGCTTGAA 226
consensus_5340#2      ------------------------------------------------------------
                                                                                  

consensus_5340#0      TTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGT-AATAG 419
consensus_5340#1      TTATCGACGTAGATGCTACATAGTGGGTTCTCATCCTTCAGAGACTACGAGTGT-AATAG 285
consensus_5340#2      ---------------------------------------AGACACCACGCGTGCCAGTGG 21
                                                             *** ** *** ***  * * *

consensus_5340#0      GAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAA 479
consensus_5340#1      GAGCATCCGTTGACAAAAGGATCACCCTAAGATGATCATCTCATGGCTATTGGGAACGAA 345
consensus_5340#2      ATGCAT--GCTG-CATGGGGCTGATTGGGGAACGAATGCAAATGCAAGATGGGTTGCTGA 78
                        ****  * ** **   ** * *       * **             ** **   *  *

consensus_5340#0      TCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGT-CG 538
consensus_5340#1      TCAAATCAGATGGTTCTATTTCTCAACCTTTCTGACTTGCTCCTACGGAACCAAGGT-CG 404
consensus_5340#2      TGTTGCTGCAAACACTGTGTGCTGGACTTGGCTGCCTGACA-----GGAACCAAGGTGCG 133
                      *        *         * **  ** *  *** **  *      *********** **

consensus_5340#0      AAAGG-ATTGAAA--AAGT-CAGT---CATTCACAACCACTGAT--GAAGGATTCCTCGA 589
consensus_5340#1      AAAGG-ATTGAAA--AAGT-CAGT---CATTCACAACCACTGAT--GAAGGATTCCTCGA 455
consensus_5340#2      AAAGGGATTGGAATAAAGTGCAGTGCATGTGCACAACCACTGGATGGAAGGATTCCTCGA 193
                      ***** **** **  **** ****     * ***********    **************

consensus_5340#0      AAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCT 649
consensus_5340#1      AAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCT 515
consensus_5340#2      AAAGTTAAGGATTAGTAGTTCTTTTTCGAAATCGATTTCGAAAAAGAATGGATTCGGTCT 253
                      ************************************************************

consensus_5340#0      TATACATACG-------------------------------------------------- 659
consensus_5340#1      TATACATACGCGAGGAAGGTAATCAAAAAAGAAAGAAGACAAGTTCTTCTTTCTTTTATC 575
consensus_5340#2      TATACATACGCGAGGAAGGTAAAAAAAAA------------------------------- 282
                      **********                                                  

consensus_5340#0      ----------------------------
consensus_5340#1      ACTTAGGAGCCGTGCGAGATGAAAGTCT 603
consensus_5340#2      ----------------------------