cluster # 1939

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Oryza sativa
cluster # 1939 cluster # 1939 Sequences # 2 consensus # 2

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_1939#0 length = 608 sequences # 1

consensus_1939#1 length = 506 sequences # 1

consensusID : consensus_1939#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 608
fasta sequence

                              [GCTCTCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAATGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGGGGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCGCGGCATCGACCATCGAGGACTCCGAGAGTAGCAGTGGTTATTTACCCCACGCTCGGATGGATATGTTTTCATCTGAATGGGACAGGAATGAAGTACACTCTCGAGGCATTTCTCCTTGATCACGGAAGGAGCACAACACTATCACCAAAGAGAACCCTGTCTGTGACTACTTTCCTCAAGTCGTCGGGTAGGTGGCTTGGGAACATTGCCTGGACAACTGATGATTAACGTAAGACTGAGATTTCTAGTCAAATGCAATCAAAGAAATTAAAGAGTAAAGTAAAGCCTCGTGAAACATTACCAGTATCAAATAAACGTCCTTAAAGACTTGAAAAGGAAAAGGCTTTGATTTTGGAGTAGTATAGATGTGAAGGCCTCTACTTTTTTTTCTCATCTTTCAGTGACTTTGAATTTAGCAATAAAAGAAG]

[+] EMBL AK121210             [GCTCTCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAATGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGGGGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCGCGGCATCGACCATCGAGGACTCCGAGAGTAGCAGTGGTTATTTACCCCACGCTCGGATGGATATGTTTTCATCTGAATGGGACAGGAATGAAGTACACTCTCGAGGCATTTCTCCTTGATCACGGAAGGAGCACAACACTATCACCAAAGAGAACCCTGTCTGTGACTACTTTCCTCAAGTCGTCGGGTAGGTGGCTTGGGAACATTGCCTGGACAACTGATGATTAACGTAAGACTGAGATTTCTAGTCAAATGCAATCAAAGAAATTAAAGAGTAAAGTAAAGCCTCGTGAAACATTACCAGTATCAAATAAACGTCCTTAAAGACTTGAAAAGGAAAAGGCTTTGATTTTGGAGTAGTATAGATGTGAAGGCCTCTACTTTTTTTTCTCATCTTTCAGTGACTTTGAATTTAGCAATAAAAGAAG]




>consensus_1939#0
GCTCTCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAA
TGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGG
GGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCG
CGGCATCGACCATCGAGGACTCCGAGAGTAGCAGTGGTTATTTACCCCACGCTCGGATGG
ATATGTTTTCATCTGAATGGGACAGGAATGAAGTACACTCTCGAGGCATTTCTCCTTGAT
CACGGAAGGAGCACAACACTATCACCAAAGAGAACCCTGTCTGTGACTACTTTCCTCAAG
TCGTCGGGTAGGTGGCTTGGGAACATTGCCTGGACAACTGATGATTAACGTAAGACTGAG
ATTTCTAGTCAAATGCAATCAAAGAAATTAAAGAGTAAAGTAAAGCCTCGTGAAACATTA
CCAGTATCAAATAAACGTCCTTAAAGACTTGAAAAGGAAAAGGCTTTGATTTTGGAGTAG
TATAGATGTGAAGGCCTCTACTTTTTTTTCTCATCTTTCAGTGACTTTGAATTTAGCAAT
AAAAGAAG

consensusID : consensus_1939#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 506
fasta sequence

                              [TCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAATGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGGGGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCGCGGCATCGACCATCGAGGACTCCGAGAGTAGCAGACGACTTGCTTTGTCTAGATACCAACTGCAGCAGTAAATCGAGCTCTAACCGTGGTTGTAGGAATGTTCCTACTTGGAATAACTGAAGAAAAATAACAAGAAACGGTAATGCCCAAACGAATGCTACTTTCTGCAAATGTCACTAACCAAACTGGAGAAATGGGGAAAACATAAGGTGGTATTCATGTTACACTTTGTTGTTTTGATAAGGGAATTAATAATAATGTGTCCCGGCCAAGAGATGCACAAAGAAATCTTGTTATTACTTTTTGGAGTTGTGGGAATAAATTCTTGTA]

[+] EMBL AK111007             [TCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAATGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGGGGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCGCGGCATCGACCATCGAGGACTCCGAGAGTAGCAGACGACTTGCTTTGTCTAGATACCAACTGCAGCAGTAAATCGAGCTCTAACCGTGGTTGTAGGAATGTTCCTACTTGGAATAACTGAAGAAAAATAACAAGAAACGGTAATGCCCAAACGAATGCTACTTTCTGCAAATGTCACTAACCAAACTGGAGAAATGGGGAAAACATAAGGTGGTATTCATGTTACACTTTGTTGTTTTGATAAGGGAATTAATAATAATGTGTCCCGGCCAAGAGATGCACAAAGAAATCTTGTTATTACTTTTTGGAGTTGTGGGAATAAATTCTTGTA]




>consensus_1939#1
TCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAATGGC
GGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGGGGCT
TCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCGCGGC
ATCGACCATCGAGGACTCCGAGAGTAGCAGACGACTTGCTTTGTCTAGATACCAACTGCA
GCAGTAAATCGAGCTCTAACCGTGGTTGTAGGAATGTTCCTACTTGGAATAACTGAAGAA
AAATAACAAGAAACGGTAATGCCCAAACGAATGCTACTTTCTGCAAATGTCACTAACCAA
ACTGGAGAAATGGGGAAAACATAAGGTGGTATTCATGTTACACTTTGTTGTTTTGATAAG
GGAATTAATAATAATGTGTCCCGGCCAAGAGATGCACAAAGAAATCTTGTTATTACTTTT
TGGAGTTGTGGGAATAAATTCTTGTA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_1939#0      GCTCTCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAA 60
consensus_1939#1      ----TCAGGCTCTCAGCTCACGCAGCCGCAGCGTTGTTGCTGCGATCTGCGGCGAGACAA 56
                          ********************************************************

consensus_1939#0      TGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGG 120
consensus_1939#1      TGGCGGGGCGGCCACGGAGAGGGAGAGGCGGGTCAGGCGGCGGAGAAGCCCAGTGCTGGG 116
                      ************************************************************

consensus_1939#0      GGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCG 180
consensus_1939#1      GGCTTCCTCCACATAGACGGGTGCAGCGGGCGGCGAGCCGGCGAGGCCTCATCTGGCGCG 176
                      ************************************************************

consensus_1939#0      CGGCATCGACCATCGAGGACTCCGAGAGTAGCAGTGGTTATTTACCCCACGCTCGGATGG 240
consensus_1939#1      CGGCATCGACCATCGAGGACTCCGAGAGTAGCA--GACGACTTGCTTT--GTCTAGATAC 232
                      *********************************  *   * ** *     *    ***  

consensus_1939#0      ATATGTTTTCATCTGAATGGGACAGGAATGAAGTACACTCTCGAGGCATTTCTCCTTG-- 298
consensus_1939#1      CAACTGCAGCAGTAAATCGAGCTCTAACCGTGGT----TGTAGGAATGTTCCTACTTGGA 288
                        *      **    *  * *     *  *  **    * * *     ** ** ****  

consensus_1939#0      ATCACGGAAGGAGCACAACACTATCACCAAAGAGAACCCTGTCTGTGACTACTTTCCTCA 358
consensus_1939#1      ATAACTGAAGAAAAATAACA--AGAAACGGTAATG-CCCAAACGAATGCTACTTTCTGCA 345
                      ** ** **** *  * ****  *  * *    *   ***   *     ********  **

consensus_1939#0      AGTCGTCGGGTAGGTGGCTTGGGAACATTGCCTGGACAACTGATG--ATTAACGTAAGAC 416
consensus_1939#1      AAT-GTCAC-TAACCAAACTGGAGAAATGGGGAAAACATAAGGTGGTATTCATGTTACAC 403
                      * * ***   **       ***  * ** *     ***   * **  *** * ** * **

consensus_1939#0      TGAGATTTCTAGTCAAATGCAATCAAAGAAATTAAAGAGTAAAGTAAAGCCTCGTGAAAC 476
consensus_1939#1      TTTGTTGTTTTGATAAG-GGAATTAATAATAATGTGTCCCGGCCAAGAGATGCACAAAGA 462
                      *  * * * * *  **  * *** **  * * *            * **   *   **  

consensus_1939#0      ATTACCAGTATCAAATAAACGTCCTTAAAGACTTGAAAAGGAAAAGGCTTTGATTTTGGA 536
consensus_1939#1      AATCTTGTTATTA---------CTTTTTGGAGTTGTGGGAATAAATTCTTGTA------- 506
                      * *     *** *         * **   ** ***       ***  ***  *       

consensus_1939#0      GTAGTATAGATGTGAAGGCCTCTACTTTTTTTTCTCATCTTTCAGTGACTTTGAATTTAG 596
consensus_1939#1      ------------------------------------------------------------
                                                                                  

consensus_1939#0      CAATAAAAGAAG 608
consensus_1939#1      ------------