cluster # 4307

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Oryza sativa
cluster # 4307 cluster # 4307 Sequences # 3 consensus # 3

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_4307#0 length = 547 sequences # 1

consensus_4307#1 length = 385 sequences # 1
consensus_4307#2 length = 279 sequences # 1

consensusID : consensus_4307#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 547
fasta sequence

                              [TTGGGCACGTCTTGATCATAAATTCGATTTAATGTACGCTAAACGTGCTTTCGTTCACTGGTATGTCGGTGAAGGTATGGAAGAAGGTGAATTCTCGGAAGCTCGTGAAGATTTAGCTGCTCTCGAAAAAGATTACGAAGAAGTCGGCGTTGATTCAGTTGAAGGCGAAGGTGAAGGTGAAGGCGAAGAATATTAAACGAGCAAACAAATTCAATAATAATTTCTTCAAGCACAGCANACAAAATACAATATTCGATCGAACATTTTCTTTATCTCTTTTCTCAATATCATCATTGTGTACTTTCTCATCTTACATTTGCTTCTGTATCTTATTTTCATTCTCTACTAGTTTTAACAACAAGCGAGAGATCTTTACAATTCAATGTAATTCTTTGTTTCTTATTCTCTTATGATTATTTTTTCTCCTCTATCTTTTTCTCTACTGTGCTTCGCTCTTGAACAACAACTATTGAANACAAAAGAATCTAATAAAACAAATTGATGCACTTTATTCTAAATNNNNNNNANNNNNNNNNNNNNNNNNNNN]

[+] EMBL CA754924             [TTGGGCACGTCTTGATCATAAATTCGATTTAATGTACGCTAAACGTGCTTTCGTTCACTGGTATGTCGGTGAAGGTATGGAAGAAGGTGAATTCTCGGAAGCTCGTGAAGATTTAGCTGCTCTCGAAAAAGATTACGAAGAAGTCGGCGTTGATTCAGTTGAAGGCGAAGGTGAAGGTGAAGGCGAAGAATATTAAACGAGCAAACAAATTCAATAATAATTTCTTCAAGCACAGCANACAAAATACAATATTCGATCGAACATTTTCTTTATCTCTTTTCTCAATATCATCATTGTGTACTTTCTCATCTTACATTTGCTTCTGTATCTTATTTTCATTCTCTACTAGTTTTAACAACAAGCGAGAGATCTTTACAATTCAATGTAATTCTTTGTTTCTTATTCTCTTATGATTATTTTTTCTCCTCTATCTTTTTCTCTACTGTGCTTCGCTCTTGAACAACAACTATTGAANACAAAAGAATCTAATAAAACAAATTGATGCACTTTATTCTAAATNNNNNNNANNNNNNNNNNNNNNNNNNNN]




>consensus_4307#0
TTGGGCACGTCTTGATCATAAATTCGATTTAATGTACGCTAAACGTGCTTTCGTTCACTG
GTATGTCGGTGAAGGTATGGAAGAAGGTGAATTCTCGGAAGCTCGTGAAGATTTAGCTGC
TCTCGAAAAAGATTACGAAGAAGTCGGCGTTGATTCAGTTGAAGGCGAAGGTGAAGGTGA
AGGCGAAGAATATTAAACGAGCAAACAAATTCAATAATAATTTCTTCAAGCACAGCANAC
AAAATACAATATTCGATCGAACATTTTCTTTATCTCTTTTCTCAATATCATCATTGTGTA
CTTTCTCATCTTACATTTGCTTCTGTATCTTATTTTCATTCTCTACTAGTTTTAACAACA
AGCGAGAGATCTTTACAATTCAATGTAATTCTTTGTTTCTTATTCTCTTATGATTATTTT
TTCTCCTCTATCTTTTTCTCTACTGTGCTTCGCTCTTGAACAACAACTATTGAANACAAA
AGAATCTAATAAAACAAATTGATGCACTTTATTCTAAATNNNNNNNANNNNNNNNNNNNN
NNNNNNN

consensusID : consensus_4307#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 385
fasta sequence

                              [GTGAAGATTTGGCTGCACTCGAAAAAGATTACGAAGAAGTCGGTGTTGACTCAGTTGAAGGCGAAGGTGAAGGCGAAGGCGAAGAATATTAAACGGGCGAACATTTTCATCATCAACAGCACAGCAACAATAAAAACAAATCCATCGAACATTCTAGTTTCTTTTTTTTGTTTGTGTACTATCTTTATTATTTCTTTTCTTACTTCTTCTTCTTTTTTGATTCTGTATCTTATCATTTCCACTAGTTTGACAACAAGCGAAAGATCTTCTATGTAATTCAATGTAATTCATTCTTATTTTCCTACGGTTTTTTTCTGTGCTTCGTCGCCTTAGAAAAAAAGAACAAATAAACGAATGATCCACTTATTCTAATTCAAAAAAAAAA]

[+] EMBL CA755780             [GTGAAGATTTGGCTGCACTCGAAAAAGATTACGAAGAAGTCGGTGTTGACTCAGTTGAAGGCGAAGGTGAAGGCGAAGGCGAAGAATATTAAACGGGCGAACATTTTCATCATCAACAGCACAGCAACAATAAAAACAAATCCATCGAACATTCTAGTTTCTTTTTTTTGTTTGTGTACTATCTTTATTATTTCTTTTCTTACTTCTTCTTCTTTTTTGATTCTGTATCTTATCATTTCCACTAGTTTGACAACAAGCGAAAGATCTTCTATGTAATTCAATGTAATTCATTCTTATTTTCCTACGGTTTTTTTCTGTGCTTCGTCGCCTTAGAAAAAAAGAACAAATAAACGAATGATCCACTTATTCTAATTCAAAAAAAAAA]




>consensus_4307#1
GTGAAGATTTGGCTGCACTCGAAAAAGATTACGAAGAAGTCGGTGTTGACTCAGTTGAAG
GCGAAGGTGAAGGCGAAGGCGAAGAATATTAAACGGGCGAACATTTTCATCATCAACAGC
ACAGCAACAATAAAAACAAATCCATCGAACATTCTAGTTTCTTTTTTTTGTTTGTGTACT
ATCTTTATTATTTCTTTTCTTACTTCTTCTTCTTTTTTGATTCTGTATCTTATCATTTCC
ACTAGTTTGACAACAAGCGAAAGATCTTCTATGTAATTCAATGTAATTCATTCTTATTTT
CCTACGGTTTTTTTCTGTGCTTCGTCGCCTTAGAAAAAAAGAACAAATAAACGAATGATC
CACTTATTCTAATTCAAAAAAAAAA

consensusID : consensus_4307#2
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 279
fasta sequence

                              [TATGTCGGTGAAGGTATGGAAGAAGGTGAATTTTCGGAAGCACGAGAAGATTTAGCTGCTTTGGAAAAAGATTATGAAGAAGTTGGTGTCGATTCAGTTGAGGGTGAAGGCGAAGGTGAAGGCGAAGAATATTAAATCAACTGACTAATACAAATCTCTCTCTCTCTTTATCTCTACAGGACAATAAATAAATCATCATCTTACTATTTTTTTTCTTGTTCTCATTGTATTTCTTTCTCTTATCAAAAAATAAAATAAACATTTCCATAGAAAAAAAAA]

[+] EMBL CA755225             [TATGTCGGTGAAGGTATGGAAGAAGGTGAATTTTCGGAAGCACGAGAAGATTTAGCTGCTTTGGAAAAAGATTATGAAGAAGTTGGTGTCGATTCAGTTGAGGGTGAAGGCGAAGGTGAAGGCGAAGAATATTAAATCAACTGACTAATACAAATCTCTCTCTCTCTTTATCTCTACAGGACAATAAATAAATCATCATCTTACTATTTTTTTTCTTGTTCTCATTGTATTTCTTTCTCTTATCAAAAAATAAAATAAACATTTCCATAGAAAAAAAAA]




>consensus_4307#2
TATGTCGGTGAAGGTATGGAAGAAGGTGAATTTTCGGAAGCACGAGAAGATTTAGCTGCT
TTGGAAAAAGATTATGAAGAAGTTGGTGTCGATTCAGTTGAGGGTGAAGGCGAAGGTGAA
GGCGAAGAATATTAAATCAACTGACTAATACAAATCTCTCTCTCTCTTTATCTCTACAGG
ACAATAAATAAATCATCATCTTACTATTTTTTTTCTTGTTCTCATTGTATTTCTTTCTCT
TATCAAAAAATAAAATAAACATTTCCATAGAAAAAAAAA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_4307#0      TTGGGCACGTCTTGATCATAAATTCGATTTAATGTACGCTAAACGTGCTTTCGTTCACTG 60
consensus_4307#1      ------------------------------------------------------------
consensus_4307#2      ------------------------------------------------------------
                                                                                  

consensus_4307#0      GTATGTCGGTGAAGGTATGGAAGAAGGTGAATTCTCGGAAGCTCGTGAAGATTTAGCTGC 120
consensus_4307#1      --------------------------------------------GTGAAGATTTGGCTGC 16
consensus_4307#2      -TATGTCGGTGAAGGTATGGAAGAAGGTGAATTTTCGGAAGCACGAGAAGATTTAGCTGC 59
                                                                  * ******** *****

consensus_4307#0      TCTCGAAAAAGATTACGAAGAAGTCGGCGTTGATTCAGTTGAAGGCGAAGGTGAAGGTGA 180
consensus_4307#1      ACTCGAAAAAGATTACGAAGAAGTCGGTGTTGACTCAGTTGAAGGCGAAGGTGAAGGCGA 76
consensus_4307#2      TTTGGAAAAAGATTATGAAGAAGTTGGTGTCGATTCAGTTGAGGGTGAAGGCGAAGGTGA 119
                        * *********** ******** ** ** ** ******** ** ***** ***** **

consensus_4307#0      AGGCGAAGAATATTAAACGAGCAAACAAATTCAATAATAATTTCTTCAAGCACAGCANAC 240
consensus_4307#1      AGGCGAAGAATATTAAACGGGCGAACATTTTCATCATCAAC-------AGCACAGCAA-C 128
consensus_4307#2      AGGCGAAGAATATTAAATCAACTGACTAATACAAATCTCTCT------CTCTCTTTAT-C 172
                      *****************    *  **   * **                 * *   *  *

consensus_4307#0      AAAATACAATATTCGATCGAACATT-----TTCTTTATCTCTTTTCT-CAATATCATCAT 294
consensus_4307#1      AATAAAAACAAATCCATCGAACATTCTAGTTTCTTTTTTTTGTTTGTGTACTATCTTTAT 188
consensus_4307#2      TCTACAGGACAATAAATAAATCATC---ATCTTACTATTTTTTTTCT----TGTTCTCAT 225
                         * *    * *  **  * ***       *   * * *  *** *    * *  * **

consensus_4307#0      TGTGTACTTTCTCATCTTACATTTGCTTCTGTATCTTATTTTCAT--TCTCTACTAGTTT 352
consensus_4307#1      TATTTCTTTTCTTACTTCTTCTTCTTTTTTGATTCTGTATCTTATCATTTCCACTAGTTT 248
consensus_4307#2      TGT----------ATTTCTTTCTCTTATCAAAAAATAAAATAAAC-ATTTCCA-TAGAAA 273
                      * *          *  *     *    *       *       *   * ** * ***   

consensus_4307#0      TAACAACAAGCGAGAGATCTT---TACAATTCAATGTAATTCTTTGTTTCTTATTCTCTT 409
consensus_4307#1      -GACAACAAGCGAAAGATCTTCTATGTAATTCAATGTAATTCA----TTCTTATTTTCCT 303
consensus_4307#2      AAAAAA------------------------------------------------------ 279
                        * **                                                      

consensus_4307#0      ATGATTATTTTTTCTCCTCTATCTTTTTCTCTACTGTGCTTCGCTCTTGAACAACAACTA 469
consensus_4307#1      ACGGTTTTTTT----------------------CTGTGCTTCGTCGCC------------ 329
consensus_4307#2      ------------------------------------------------------------
                                                                                  

consensus_4307#0      TTGAANACAAAAGAATCTAATAAAACAAATTGATGCACTTTATTCTAAATNNNNNNNANN 529
consensus_4307#1      -TTAGAAAAAAAGAA--CAAATAAACGAAT-GATCCACTT-ATTCTAATTCAAAAAAAAA 384
consensus_4307#2      ------------------------------------------------------------
                                                                                  

consensus_4307#0      NNNNNNNNNNNNNNNNNN 547
consensus_4307#1      A----------------- 385
consensus_4307#2      ------------------