Home
Who am I
Technology
EST Assembly
Contact

These datas are free for academic use only, please contact me for any other use.

Oryza sativa
cluster # 4960 cluster # 4960       Sequences # 3       consensus # 2


see consensus multiple alignment with clustalw

Direct access to contigs :
consensus_4960#0 length = 972 sequences # 1  
consensus_4960#1 length = 633 sequences # 2  

consensusID : consensus_4960#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 972
fasta sequence
                              [GTACCTCATAGTTGGGCTGTACCTTCCTCAGGTGTCAAATGTGATGCTGTACCTGGTCGTTCAAATCTTACCTCCATCTCGGTACAACGAGAAGGAGTTTACTATGGTCAGTGCAGTGAGATTTGTGGAACTAATCATGCCTTTACGCCTATCGTCGTAGAAGCGGTGACTTTGAAAGATTATGCGGATTGGGTATCCAATCAATTAATCCTCCAAACCAACTAAACCGGGGAAGCTGAAGCGGAAATGCAATTCTCGGGTGAGGGAAGGGGGAAGCTCCAGGAAGGCTTCGCTCGCTCGCTCAAAAAGCTCTAACGCTCGTTTACGGGTGGAGTGCATAAGAAGCCCTTATTGAAGTAGGGCGAGGCCTTACTACACGAGCTCGTAAGTCAAGCACGGAACGAGCCTTGTCTACGAAGCTTCGCTTCATCATCTTGCTTGCTTCTGGCGAAGCTTAACGCACTATAACATAGGCATGCATGATGGTATGGTAGGGTCCAAAGATACTTTTAAGGCCGACCACTACATAGGAGCGATAGGAAGCCAAGCCGTCAAAAGGAAAGGCGAGCAGCCCTTATTGCAATAGCAAACGGCCTACTTATAGCCCTATTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGCTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTGGAACCTTTCAAGATTTTGAGACGCTTGTAGCTGATTAGTGATTACCCCTTACCGTCGGTTTTGGGATTTGCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATAGAGTCTCCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCACTCATATTTATGAAATATTGTCAGCATTCAATGAATCTGTGTTAAACAGGTCATACTAACTAATCTTTAAACG]

[+] EMBL AK108508             [GTACCTCATAGTTGGGCTGTACCTTCCTCAGGTGTCAAATGTGATGCTGTACCTGGTCGTTCAAATCTTACCTCCATCTCGGTACAACGAGAAGGAGTTTACTATGGTCAGTGCAGTGAGATTTGTGGAACTAATCATGCCTTTACGCCTATCGTCGTAGAAGCGGTGACTTTGAAAGATTATGCGGATTGGGTATCCAATCAATTAATCCTCCAAACCAACTAAACCGGGGAAGCTGAAGCGGAAATGCAATTCTCGGGTGAGGGAAGGGGGAAGCTCCAGGAAGGCTTCGCTCGCTCGCTCAAAAAGCTCTAACGCTCGTTTACGGGTGGAGTGCATAAGAAGCCCTTATTGAAGTAGGGCGAGGCCTTACTACACGAGCTCGTAAGTCAAGCACGGAACGAGCCTTGTCTACGAAGCTTCGCTTCATCATCTTGCTTGCTTCTGGCGAAGCTTAACGCACTATAACATAGGCATGCATGATGGTATGGTAGGGTCCAAAGATACTTTTAAGGCCGACCACTACATAGGAGCGATAGGAAGCCAAGCCGTCAAAAGGAAAGGCGAGCAGCCCTTATTGCAATAGCAAACGGCCTACTTATAGCCCTATTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGCTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTGGAACCTTTCAAGATTTTGAGACGCTTGTAGCTGATTAGTGATTACCCCTTACCGTCGGTTTTGGGATTTGCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATAGAGTCTCCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCACTCATATTTATGAAATATTGTCAGCATTCAATGAATCTGTGTTAAACAGGTCATACTAACTAATCTTTAAACG]


>consensus_4960#0 GTACCTCATAGTTGGGCTGTACCTTCCTCAGGTGTCAAATGTGATGCTGTACCTGGTCGT TCAAATCTTACCTCCATCTCGGTACAACGAGAAGGAGTTTACTATGGTCAGTGCAGTGAG ATTTGTGGAACTAATCATGCCTTTACGCCTATCGTCGTAGAAGCGGTGACTTTGAAAGAT TATGCGGATTGGGTATCCAATCAATTAATCCTCCAAACCAACTAAACCGGGGAAGCTGAA GCGGAAATGCAATTCTCGGGTGAGGGAAGGGGGAAGCTCCAGGAAGGCTTCGCTCGCTCG CTCAAAAAGCTCTAACGCTCGTTTACGGGTGGAGTGCATAAGAAGCCCTTATTGAAGTAG GGCGAGGCCTTACTACACGAGCTCGTAAGTCAAGCACGGAACGAGCCTTGTCTACGAAGC TTCGCTTCATCATCTTGCTTGCTTCTGGCGAAGCTTAACGCACTATAACATAGGCATGCA TGATGGTATGGTAGGGTCCAAAGATACTTTTAAGGCCGACCACTACATAGGAGCGATAGG AAGCCAAGCCGTCAAAAGGAAAGGCGAGCAGCCCTTATTGCAATAGCAAACGGCCTACTT ATAGCCCTATTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGCTGGCAGCT TGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTG GAACCTTTCAAGATTTTGAGACGCTTGTAGCTGATTAGTGATTACCCCTTACCGTCGGTT TTGGGATTTGCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATAGAGTCTCCTCGA CTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCAC TCATATTTATGAAATATTGTCAGCATTCAATGAATCTGTGTTAAACAGGTCATACTAACT AATCTTTAAACG



consensusID : consensus_4960#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 2
consensus length = 633
fasta sequence
                              [TGCATTCTTTCAGTTGGTTTTTACCCCATTTCTCCATCTTGGTTATACCGGACCATTTTGTTTCATCCAGGTCCGGAACAAGGCTT-CTTATCTT-CTG-CAAGGT-GCGGTCTTG-AGAAGATC-TGCTGGCGGTGCTAGCTTACCCGTT--CAGTAATTT-GAACTTACT-GAACT-GGATCAAATGGTG-CTG-TTGA-CAGTATCTATA-TTTAAACTACTAGCACC-AAAACTGCATGGCAGGGCAAACTTTCAGGTTCTTATATTTGCTTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAAT-GCTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTGGAACCTTTCAAGATTTTGAGACACTTGTAGCTGATTAGTGATTACCCCTTACCGTC-GTTTTGGGATTTCCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGAT--AGTCTCCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCACTCATATTTATGAAATATTGTCAGCATTCAAAAAATCTGTGTTAAACAGGTCATACTAACTAATCTTTAAACGAGTCTATTACAAAAA]

[+] EMBL BM420044             [TGCATTCTTTCAGTTGGTTTTTACCCCATTTCTCCATCTTGGTTATACCGGACCATTTTGTTTCATCCAGGTCCGGAACAAGGCTT CTTATCTT CTG CAAGGT GCGGTCTTG AGAAGATC TGCTGGCGGTGCTAGCTTACCCGTT  CAGTAATTT GAACTTACT GAACT GGATCAAATGGTG CTG TTGA CAGTATCTATA TTTAAACTACTAGCACC AAAACTGCATGGCAGGGCAAACTTTCAGGTTCTTATATTTGCTTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAAT GCTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTGGAACCTTTCAAGATTTTGAGACACTTGTAGCTGATTAGTGATTACCCCTTACCGTC GTTTTGGGATTTCCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGAT  AGTCTCCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCACTCATATTTATGAAATATTGTCAGCATTCAAAAAA                                                     ]
[+] EMBL AU030536             [                                                                              CAGGGCTTCCTTNTCTTCCTGCCAAGTTCCCGGTCTTGAAGAAGATCTTGCTGCCGNTGCTAGCTTNCCCCTTTCCANTAATTTGGAACTTACTGGAACTGGGATCAAATGGTGCCTGTTTNACCAGTATCTATATTTTAAACTACTGGCACCAAAAACTGCATGGCNGGGCAAACTTTCAGGTTCTTATATTTGCTTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGGCTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTGGANCCTTTCAAGATTTTGAGACACTTGTAGCTGATTAGTGATTACCCCTTACCGTCGGTTTTGGGATTTGCCATCCGGTATGGNGTGCACGTGCAGCTTCATCAGATAGAGTCTCCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCACTCATATTTATGAAATATTGTCAGCATTCAATGAATCTGTGTTAAACAGGTCATACTAACTAATCTTTAAACGAGTCTATTACAAAAA]


>consensus_4960#1 TGCATTCTTTCAGTTGGTTTTTACCCCATTTCTCCATCTTGGTTATACCGGACCATTTTG TTTCATCCAGGTCCGGAACAAGGCTTCTTATCTTCTGCAAGGTGCGGTCTTGAGAAGATC TGCTGGCGGTGCTAGCTTACCCGTTCAGTAATTTGAACTTACTGAACTGGATCAAATGGT GCTGTTGACAGTATCTATATTTAAACTACTAGCACCAAAACTGCATGGCAGGGCAAACTT TCAGGTTCTTATATTTGCTTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATG CTGGCAGCTTGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTC CAGTATGTGGAACCTTTCAAGATTTTGAGACACTTGTAGCTGATTAGTGATTACCCCTTA CCGTCGTTTTGGGATTTCCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATAGTCT CCTCGACTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTT TACCACTCATATTTATGAAATATTGTCAGCATTCAAAAAATCTGTGTTAAACAGGTCATA CTAACTAATCTTTAAACGAGTCTATTACAAAAA



consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_4960#0      GTACCTCATAGTTGGGCTGTACCTTCCTCAGGTGTCAAATGTGATGCTGTACCTGGTCGT 60
consensus_4960#1      ------------------------------------------------------------
                                                                                  

consensus_4960#0      TCAAATCTTACCTCCATCTCGGTACAACGAGAAGGAGTTTACTATGGTCAGTGCAGTGAG 120
consensus_4960#1      ------------------------------------------------------------
                                                                                  

consensus_4960#0      ATTTGTGGAACTAATCATGCCTTTACGCCTATCGTCGTAGAAGCGGTGACTTTGAAAGAT 180
consensus_4960#1      ------------------------------------------------------------
                                                                                  

consensus_4960#0      TATGCGGATTGGGTATCCAATCAATTAATCCTCCAAACCAACTAAACCGGGGAAGCTGAA 240
consensus_4960#1      ------------------------------------------------------------
                                                                                  

consensus_4960#0      GCGGAAATGCAATTCTCGGGTGAGGGAAGGGGGAAGCTCCAGGAAGGCTTCGCTCGCTCG 300
consensus_4960#1      ------------------------------------------------------------
                                                                                  

consensus_4960#0      CTCAAAAAGCTCTAACGCTCGTTTACGGGTGGAGTGCATAAGAAGCCCTTATTGAAGTAG 360
consensus_4960#1      ---------------TGCATTCTTTCAGTTGGTTTTTACCCCATTTCTCCATCTTGGTTA 45
                                      **    ** * * ***  *  *    *   *   **    **  

consensus_4960#0      GGCGAGGCCTTACTACACGAGCTCGTAAGTCAAGCACGGAACGAGCCTTGTCTACGAAGC 420
consensus_4960#1      TACCGGACCATTTTGT-----TTCAT---CCAGGTCCGGAACAAGGCTTCTTATCTT--C 95
                        *  * ** *  *        ** *    ** *  ****** ** *** *   *    *

consensus_4960#0      TTCGCTTCATCATCTTGCTTGCTTCTGGCGAAGCTTAACGCACTATAACATAGGCATGCA 480
consensus_4960#1      TGCAAGGTGCGGTCTTGAGAAGATCTGCTGGCGGTGCTAGCTTACCCGTTCAGTAATTTG 155
                      * *         *****      ****  *  * *    **          **  **   

consensus_4960#0      TGATGGTATGGTAGGGTCCAAAGATACTTTTAAGGCCGACCACTACATAGGAGCGATAGG 540
consensus_4960#1      AACTTACTGAACTGGATCAAATGGTGCTGTTGA---CAGTATCTATATTTAAACTACTAG 212
                         *         ** ** ** * * ** ** *   *     *** **   * * *   *

consensus_4960#0      AAGCCAAGCCGTCAAAAGGAAAGGCGAGCAGCCCTTATTGCAATAGCAAACGGCCTACTT 600
consensus_4960#1      CACCAAAACTGC---ATGGCAGGGCAAAC--------TTTCAGG-----------TTCTT 250
                       * * ** * *    * ** * *** * *        ** **             * ***

consensus_4960#0      ATAGCCCTATTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGCTGGCAGCT 660
consensus_4960#1      ATA-TTTGCTTTAGGAATTGTAGGCCATCTTTTGTAGACAGGGGCAAAATGCTGGCAGCT 309
                      ***      ***************************************************

consensus_4960#0      TGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTG 720
consensus_4960#1      TGTTTATGGTATCATGGCTGACAGCACATTTGGCCCATGTATAGCTTGTTCCAGTATGTG 369
                      ************************************************************

consensus_4960#0      GAACCTTTCAAGATTTTGAGACGCTTGTAGCTGATTAGTGATTACCCCTTACCGTCGGTT 780
consensus_4960#1      GAACCTTTCAAGATTTTGAGACACTTGTAGCTGATTAGTGATTACCCCTTACCGTCG-TT 428
                      ********************** ********************************** **

consensus_4960#0      TTGGGATTTGCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATAGAGTCTCCTCGA 840
consensus_4960#1      TTGGGATTTCCCATCCGGTATGGAGTGCACGTGCAGCTTCATCAGATA--GTCTCCTCGA 486
                      ********* **************************************  **********

consensus_4960#0      CTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCAC 900
consensus_4960#1      CTGATCGCTGGAATTGGTCAGATTTTGCGTGAAGCGTGGAATTCATCAAATGTTTACCAC 546
                      ************************************************************

consensus_4960#0      TCATATTTATGAAATATTGTCAGCATTCAATGAATCTGTGTTAAACAGGTCATACTAACT 960
consensus_4960#1      TCATATTTATGAAATATTGTCAGCATTCAAAAAATCTGTGTTAAACAGGTCATACTAACT 606
                      ******************************  ****************************

consensus_4960#0      AATCTTTAAACG--------------- 972
consensus_4960#1      AATCTTTAAACGAGTCTATTACAAAAA 633
                      ************               




Copyright Mon Feb 16 12:49:02 CET 2004 Hubert Wassner    (hubert.wassner@noos.fr)