cluster # 3939

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Oryza sativa
cluster # 3939 cluster # 3939 Sequences # 3 consensus # 3

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_3939#0 length = 771 sequences # 1

consensus_3939#1 length = 309 sequences # 1
consensus_3939#2 length = 253 sequences # 1

consensusID : consensus_3939#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 771
fasta sequence

                              [GCTGCTCGCCCTGGTGGCGTCCCTCGCCGCGGCGCGGGGCGCGGACGCCATCTGCAACATGTCGAACGGCGACTTCAGGCTGTGCCAGCCGGCGGCGGCGGCGAGCGACCCGACGGACGGCCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTACAAGGGCGTCGCCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGCGCCATGGCGCTGCCCGGCAAGTGCGGCCTCACCATGCCCACCAACTGCTCCTGATCGATCCATCCATCGATCTAGCTCCGCGCGTCTCTGCATTATATTATTTCCGTCACGACACTAGCTTTGTGTGTGCAACGAAAAGTATGCTGGTTAAATAATTAACGTGCTGGTGAACTTAAACTAATCACCATGCATGCTCCTAGCCGATCGATCTTACTGTTGTGTAATTCATCCACAATTCCACATGTACTGAAGTGTGCATGGTTCGATCTTGATTTAGTATATGTAATTGTGTAAGTGTGTCGGCAATGCAAGAAGCCAATGTTAGCGTCCCGTATAATGATAAGTTATCAGGGCTTGTTATTTGGCAATTAAAAAAAAAAACAAAAAATTGGAGGGGGGGCCCGGGCCCAATTTGCCTATATCGAGTTTATTACGCCCGCTCCTGGCCGTCTTTTACAACTTAGGACTGGAAAAACCTGGTGTTCCCATGTAATAGCCTTGGATAAATTCCTTTCTGCAGTCGGTGTATAGTTATAGAT]

[+] EMBL BE041027             [GCTGCTCGCCCTGGTGGCGTCCCTCGCCGCGGCGCGGGGCGCGGACGCCATCTGCAACATGTCGAACGGCGACTTCAGGCTGTGCCAGCCGGCGGCGGCGGCGAGCGACCCGACGGACGGCCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTACAAGGGCGTCGCCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGCGCCATGGCGCTGCCCGGCAAGTGCGGCCTCACCATGCCCACCAACTGCTCCTGATCGATCCATCCATCGATCTAGCTCCGCGCGTCTCTGCATTATATTATTTCCGTCACGACACTAGCTTTGTGTGTGCAACGAAAAGTATGCTGGTTAAATAATTAACGTGCTGGTGAACTTAAACTAATCACCATGCATGCTCCTAGCCGATCGATCTTACTGTTGTGTAATTCATCCACAATTCCACATGTACTGAAGTGTGCATGGTTCGATCTTGATTTAGTATATGTAATTGTGTAAGTGTGTCGGCAATGCAAGAAGCCAATGTTAGCGTCCCGTATAATGATAAGTTATCAGGGCTTGTTATTTGGCAATTAAAAAAAAAAACAAAAAATTGGAGGGGGGGCCCGGGCCCAATTTGCCTATATCGAGTTTATTACGCCCGCTCCTGGCCGTCTTTTACAACTTAGGACTGGAAAAACCTGGTGTTCCCATGTAATAGCCTTGGATAAATTCCTTTCTGCAGTCGGTGTATAGTTATAGAT]




>consensus_3939#0
GCTGCTCGCCCTGGTGGCGTCCCTCGCCGCGGCGCGGGGCGCGGACGCCATCTGCAACAT
GTCGAACGGCGACTTCAGGCTGTGCCAGCCGGCGGCGGCGGCGAGCGACCCGACGGACGG
CCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTA
CAAGGGCGTCGCCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGCGCCATGGC
GCTGCCCGGCAAGTGCGGCCTCACCATGCCCACCAACTGCTCCTGATCGATCCATCCATC
GATCTAGCTCCGCGCGTCTCTGCATTATATTATTTCCGTCACGACACTAGCTTTGTGTGT
GCAACGAAAAGTATGCTGGTTAAATAATTAACGTGCTGGTGAACTTAAACTAATCACCAT
GCATGCTCCTAGCCGATCGATCTTACTGTTGTGTAATTCATCCACAATTCCACATGTACT
GAAGTGTGCATGGTTCGATCTTGATTTAGTATATGTAATTGTGTAAGTGTGTCGGCAATG
CAAGAAGCCAATGTTAGCGTCCCGTATAATGATAAGTTATCAGGGCTTGTTATTTGGCAA
TTAAAAAAAAAAACAAAAAATTGGAGGGGGGGCCCGGGCCCAATTTGCCTATATCGAGTT
TATTACGCCCGCTCCTGGCCGTCTTTTACAACTTAGGACTGGAAAAACCTGGTGTTCCCA
TGTAATAGCCTTGGATAAATTCCTTTCTGCAGTCGGTGTATAGTTATAGAT

consensusID : consensus_3939#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 309
fasta sequence

                              [CCGCTAGCCCAGAGAGAGTTAAAACAGAATGGCGGCCAAGGCGCAGGCGGTGCTGCTGCTCTCCCTGGTGGCGTCCCTAGCCGCGGCGCTGGGCGGCAGGGCATCTGCAACATGTCGAACGGCGACTTCAAGCTGTGCCAGCCGGCGGCGGCCGTNAGCNACCCGACGGACGGCCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTAGAAGGGCGTCGCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGGNCATGGGTTTCCCGGCAAGTNGGCC]

[+] EMBL C27431               [CCGCTAGCCCAGAGAGAGTTAAAACAGAATGGCGGCCAAGGCGCAGGCGGTGCTGCTGCTCTCCCTGGTGGCGTCCCTAGCCGCGGCGCTGGGCGGCAGGGCATCTGCAACATGTCGAACGGCGACTTCAAGCTGTGCCAGCCGGCGGCGGCCGTNAGCNACCCGACGGACGGCCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTAGAAGGGCGTCGCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGGNCATGGGTTTCCCGGCAAGTNGGCC]




>consensus_3939#1
CCGCTAGCCCAGAGAGAGTTAAAACAGAATGGCGGCCAAGGCGCAGGCGGTGCTGCTGCT
CTCCCTGGTGGCGTCCCTAGCCGCGGCGCTGGGCGGCAGGGCATCTGCAACATGTCGAAC
GGCGACTTCAAGCTGTGCCAGCCGGCGGCGGCCGTNAGCNACCCGACGGACGGCCCGTCG
GCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTAGAAGGGC
GTCGCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGGNCATGGGTTTCCCGGC
AAGTNGGCC

consensusID : consensus_3939#2
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 253
fasta sequence

                              [AAGTGCGGCCTCACCATGCCCACCNNCTGCTCCTGATCGATTGATATGNTCATNACANTAGCTATGTGTGCAACGAAANATATGCTGGTTAAATAAATAACGTACTGTTGTGAAATTCATCCCCATGTACTGAAGTGTGCATGGNTCGATCTTGTTTTAGTATATGTAACAGTGTAAGTGTGTCGGCGATGCAAGAAGCCAATGTTAGCTCCCATATAATGATAAGTTATCGGGGCTTGTCATTTAAAAAAAA]

[+] EMBL AU100823             [AAGTGCGGCCTCACCATGCCCACCNNCTGCTCCTGATCGATTGATATGNTCATNACANTAGCTATGTGTGCAACGAAANATATGCTGGTTAAATAAATAACGTACTGTTGTGAAATTCATCCCCATGTACTGAAGTGTGCATGGNTCGATCTTGTTTTAGTATATGTAACAGTGTAAGTGTGTCGGCGATGCAAGAAGCCAATGTTAGCTCCCATATAATGATAAGTTATCGGGGCTTGTCATTTAAAAAAAA]




>consensus_3939#2
AAGTGCGGCCTCACCATGCCCACCNNCTGCTCCTGATCGATTGATATGNTCATNACANTA
GCTATGTGTGCAACGAAANATATGCTGGTTAAATAAATAACGTACTGTTGTGAAATTCAT
CCCCATGTACTGAAGTGTGCATGGNTCGATCTTGTTTTAGTATATGTAACAGTGTAAGTG
TGTCGGCGATGCAAGAAGCCAATGTTAGCTCCCATATAATGATAAGTTATCGGGGCTTGT
CATTTAAAAAAAA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_3939#0      GCTGCTCGCCCTGGTGGCGTCCCTCGCCGCGGCGCGGGGCGCGGACGCCATCTGCAACAT 60
consensus_3939#2      ------------------------------------------------------------
consensus_3939#1      ------------------------------------------------------------
                                                                                  

consensus_3939#0      GTCGAACGGCGACTTCAGGCTGTGCCAGCCGGCGGCGGCGGCGAGCGACCCGACGGACGG 120
consensus_3939#2      ------------------------------------------------------------
consensus_3939#1      ------------------------------------------------------------
                                                                                  

consensus_3939#0      CCCGTCGGCGGAGTGCTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTA 180
consensus_3939#2      ------------------------------------------------------------
consensus_3939#1      ------------------------------------------------------------
                                                                                  

consensus_3939#0      CAAGGGCGTCGCCGGCTTCTGGATGAGGATCTACCACATCGACGCCGCCCGCGCCATGGC 240
consensus_3939#2      ------------------------------------------------------------
consensus_3939#1      ----------------------------------------------CCGCTAGCCCAGAG 14
                                                                                  

consensus_3939#0      GCTGCCCGGCAAGTGCGGCCTCACCATGCCCACCAACTGCTCCTGATCGATCCATCCATC 300
consensus_3939#2      ----------AAGTGCGGCCTCACCATGCCCACCNNCTGCTCCTGATCGATTGATATGN- 49
consensus_3939#1      AGAGTTAAAACAGAATGGCGGC-CAAGGCGCAGGCGGTGCTGCTGCTCTCCCTGGTGGCG 73
                                 **   ***  * * * ** **     **** *** **            

consensus_3939#0      GATCTAGCTCCGCGCGTCTCTGCATTATATTATTTCCGTCACGACACTAGCTTTGTGTGT 360
consensus_3939#2      --------------------------------------TCATNACANTAGCT--ATGTGT 69
consensus_3939#1      TCCCTAGCCGCGGCGCTGGG----------------CGGCAGGGCATCTGCA--ACATGT 115
                                                             **   **   **      ***

consensus_3939#0      GCAACGAAAAGT--ATGCTGGTTAAATAATTAACGTGCTGGTGAACTTAAACTAATCACC 418
consensus_3939#2      GCAACGAAANAT--ATGCTGGTTAAATAAATAACGT------------------------ 103
consensus_3939#1      CGAACGGCGACTTCAAGCTGTGCCAGCCGGCGGCGGCCG--------------------- 154
                        ****     *  * ****    *        **                         

consensus_3939#0      ATGCATGCTCCTAGCCGATCGATCTTACTGTTGTGTAATTCATCCACAATTCCACATGTA 478
consensus_3939#2      --------------------------ACTGTTGTGAAATTCAT--------CCCCATGTA 129
consensus_3939#1      --------------------------TNAGCNACCCGACGGACGGCCCGTCGGCGGAGTG 188
                                                   *       *   *               ** 

consensus_3939#0      CTGAAGTGTGCATGGTTCGATCTTGATTTAGTATATGTAATTGTGTAAGTGTGTCGGCAA 538
consensus_3939#2      CTGAAGTGTGCATGGNTCGATCTTGTTTTAGTATATGTAACAGTGTAAGTGTGTCGGCGA 189
consensus_3939#1      CTGCGCGGCGCTGGGGGAGGCCGACCTGGCGTGCATCTGCCGGTAGAAGGGCGTCGCGGC 248
                      ***    * **  **   *  *    *   **  ** *    **  *** * ****    

consensus_3939#0      TGCAAGAAGCCAATGTTAGCGTCCCGTATAATGATAAGTTATCAGGGCTTGTTATTTGGC 598
consensus_3939#2      TGCAAGAAGCCAATGTTAGC-TCCCATATAATGATAAGTTATCGGGGCTTGTCATTTAAA 248
consensus_3939#1      TTCTGGATGAGGAT-CTACCACATCG-ACGCCGCCCGGNCAT--GGGTTTCCCGGCAAGT 304
                      * *  ** *   **  ** *    *  *    *    *  **  *** **          

consensus_3939#0      AATTAAAAAAAAAAACAAAAAATTGGAGGGGGGGCCCGGGCCCAATTTGCCTATATCGAG 658
consensus_3939#2      AAAAA------------------------------------------------------- 253
consensus_3939#1      NGGCC------------------------------------------------------- 309
                                                                                  

consensus_3939#0      TTTATTACGCCCGCTCCTGGCCGTCTTTTACAACTTAGGACTGGAAAAACCTGGTGTTCC 718
consensus_3939#2      ------------------------------------------------------------
consensus_3939#1      ------------------------------------------------------------
                                                                                  

consensus_3939#0      CATGTAATAGCCTTGGATAAATTCCTTTCTGCAGTCGGTGTATAGTTATAGAT 771
consensus_3939#2      -----------------------------------------------------
consensus_3939#1      -----------------------------------------------------