cluster # 6840

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Oryza sativa
cluster # 6840 cluster # 6840 Sequences # 4 consensus # 3

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_6840#0 length = 602 sequences # 1

consensus_6840#1 length = 479 sequences # 2
consensus_6840#2 length = 254 sequences # 1

consensusID : consensus_6840#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 602
fasta sequence

                              [ACATACCATCACATTCCGTCAGGTAGACATGCCAAAATAAATTCCATTGTAGTTTAAGGCATTCCATCTTACTTTAGATTTGTTGGTTTTCAAAGTCTGAGATGATGGTATGCATTATATGTTGCCAACCCACCGCCACCTCAGCTCAATCATGCATGATATGCACACAATCCCTATATATATCTGTATAGAATAGGCATATATATGTCCAAGGTCTACATGCACAACTACTGTCATCTTACTATGGACCATTGCATATTCTTCTCCTCATTCAAACCACCCAGGCAATGCAAGACAAAACTATTTGTGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGACC]

[+] EMBL AK062332             [ACATACCATCACATTCCGTCAGGTAGACATGCCAAAATAAATTCCATTGTAGTTTAAGGCATTCCATCTTACTTTAGATTTGTTGGTTTTCAAAGTCTGAGATGATGGTATGCATTATATGTTGCCAACCCACCGCCACCTCAGCTCAATCATGCATGATATGCACACAATCCCTATATATATCTGTATAGAATAGGCATATATATGTCCAAGGTCTACATGCACAACTACTGTCATCTTACTATGGACCATTGCATATTCTTCTCCTCATTCAAACCACCCAGGCAATGCAAGACAAAACTATTTGTGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGACC]




>consensus_6840#0
ACATACCATCACATTCCGTCAGGTAGACATGCCAAAATAAATTCCATTGTAGTTTAAGGC
ATTCCATCTTACTTTAGATTTGTTGGTTTTCAAAGTCTGAGATGATGGTATGCATTATAT
GTTGCCAACCCACCGCCACCTCAGCTCAATCATGCATGATATGCACACAATCCCTATATA
TATCTGTATAGAATAGGCATATATATGTCCAAGGTCTACATGCACAACTACTGTCATCTT
ACTATGGACCATTGCATATTCTTCTCCTCATTCAAACCACCCAGGCAATGCAAGACAAAA
CTATTTGTGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCT
CAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAA
GATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAA
GCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATC
AGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGA
CC

consensusID : consensus_6840#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 2
consensus length = 479
fasta sequence

                              [GGCCGCATCGGCGCTGTCCTCTGGTACCAGGGGGAGAGCGACACCGTGCGCTGGGCCGACGCCAACGAGTACGCCCGCCGGATGGCCATGCTCGTCCGCAACCTGCGCGCCGATCTCGCCATGCCACACCTTCTCCTCATCCAGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGACCACTCATTCTTATGATTATTGAATTGGCTTGGTATAAAAAAAA]

[+] EMBL AU030601             [GGCCGCATCGGCGCTGTCCTCTGGTACCAGGGGGAGAGCGACACCGTGCGCTGGGCCGACGCCAACGAGTACGCCCGCCGGATGGCCATGCTCGTCCGCAACCTGCGCGCCGATCTCGCCATGCCACACCTTCTCCTCATCCAGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGACCACTCATTCTTATGATTATTGAATTGGCTTGGTATAAAAAAAA]
[+] EMBL AK072880             [               GTCCTCTGGTACCAGGGGGAGAGCGACACCGTGCGCTGGGCCGACGCCAACGAGTACGCCCGCCGGATGGCCATGCTCGTCCGCAACCTGCGCGCCGATCTCGCCATGCCACACCTTCTCCTCATCCAGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGACCACTCATTCTTATGATTATTGAATTGGCTTGGTATAAtt    ]




>consensus_6840#1
GGCCGCATCGGCGCTGTCCTCTGGTACCAGGGGGAGAGCGACACCGTGCGCTGGGCCGAC
GCCAACGAGTACGCCCGCCGGATGGCCATGCTCGTCCGCAACCTGCGCGCCGATCTCGCC
ATGCCACACCTTCTCCTCATCCAGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAA
GTAGTAAGGGAAGCTCAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAG
GGTTTGCCACTAGAAGATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGA
CATATGTTGGCTCAAGCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGT
TGTTTTTCTTTTATCAGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTT
ATTTAGTTTCATGGACCACTCATTCTTATGATTATTGAATTGGCTTGGTATAAAAAAAA

consensusID : consensus_6840#2
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 254
fasta sequence

                              [TCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGGCATNTGTTGGCNCAANCCTTTTTGAACTANGGNACTTCCNCGCTCTAGNCCNCNCTGTGTTGTTTTNCTTTTATCNGNTAAATANCTAAGNGNCTACGCCCCTTNTGTNCNNCTTTTCTTATTTAGTTTCNTGGNCCNCTCNTNCTTNTGNTTNTTGAATTGGCTTGGTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA]

[+] EMBL AU097543             [TCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGGCATNTGTTGGCNCAANCCTTTTTGAACTANGGNACTTCCNCGCTCTAGNCCNCNCTGTGTTGTTTTNCTTTTATCNGNTAAATANCTAAGNGNCTACGCCCCTTNTGTNCNNCTTTTCTTATTTAGTTTCNTGGNCCNCTCNTNCTTNTGNTTNTTGAATTGGCTTGGTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA]




>consensus_6840#2
TCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGGCATNTGTTGGCNCAANCCTTTTT
GAACTANGGNACTTCCNCGCTCTAGNCCNCNCTGTGTTGTTTTNCTTTTATCNGNTAAAT
ANCTAAGNGNCTACGCCCCTTNTGTNCNNCTTTTCTTATTTAGTTTCNTGGNCCNCTCNT
NCTTNTGNTTNTTGAATTGGCTTGGTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_6840#1      ------------------------------------------------------------
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      ACATACCATCACATTCCGTCAGGTAGACATGCCAAAATAAATTCCATTGTAGTTTAAGGC 60
                                                                                  

consensus_6840#1      ------------------------------------------------------------
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      ATTCCATCTTACTTTAGATTTGTTGGTTTTCAAAGTCTGAGATGATGGTATGCATTATAT 120
                                                                                  

consensus_6840#1      ------------------------------------------GGCCGCATCGGCGCTGTC 18
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      GTTGCCAACCCACCGCCACCTCAGCTCAATCATGCATGATATGCACACAATCCCTATATA 180
                                                                                  

consensus_6840#1      CTCTGGTACCAGGGGGAGAGCGACACCGTGCGCTGGGCCGACGCCAACGAGTACGCCCGC 78
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      TATCTGTATAGAATAGGCATATATATGTCCAAGGTCTACATGCACAACTACTGTCATCTT 240
                                                                                  

consensus_6840#1      CGGATGGCCATGCTCGTCCGCAACCTGCGCGCCGATCTCGCCATGCCACACCTTCTC--- 135
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      ACTATGGACCATTGCATATTCTTCTCCTCATTCAAACCACCCAGGCAATGCAAGACAAAA 300
                                                                                  

consensus_6840#1      CTCATCCAGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCT 195
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      CTATTTGTGGTAGGACTAGCATCAGGGCTTGGGCAATATACTGAAGTAGTAAGGGAAGCT 360
                                                                                  

consensus_6840#1      CAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAA 255
consensus_6840#2      ------------------------------------------------------------
consensus_6840#0      CAGAAAGGGATCAAACTTCGAAACGTGAGATTTGTTGATGCAAAGGGTTTGCCACTAGAA 420
                                                                                  

consensus_6840#1      GATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAA 315
consensus_6840#2      --------TCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGGCATNTGTTGGCNCAA 52
consensus_6840#0      GATGGCCATCTGCACCTTAGCACCCAAGCGCAAGTCCAGCTTGGACATATGTTGGCTCAA 480
                              ************************************ *** ******* ***

consensus_6840#1      GCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATC 375
consensus_6840#2      NCCTTTTTGAACTANGGNACTTCCNCGCTCTAGNCCNCNCTGTGTTGTTTTNCTTTTATC 112
consensus_6840#0      GCCTATTTGAACTATGGTACTTCCACGCTCTAGTCCTCTCTGTGTTGTTTTTCTTTTATC 540
                       *** ********* ** ****** ******** ** * ************ ********

consensus_6840#1      AGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGA 435
consensus_6840#2      NGNTAAATANCTAAGNGNCTACGCCCCTTNTGTNCNNCTTTTCTTATTTAGTTTCNTGGN 172
consensus_6840#0      AGATAAATAGCTAAGAGACTACGCACCTTATGTTCTACTTTTCTTATTTAGTTTCATGGA 600
                       * ****** ***** * ****** **** *** *  ****************** *** 

consensus_6840#1      CCACTCATTCTTATGATTATTGAATTGGCTTGGTATAAAAAAAA---------------- 479
consensus_6840#2      CCNCTCNTNCTTNTGNTTNTTGAATTGGCTTGGTTTAAAAAAAAAAAAAAAAAAAAAAAA 232
consensus_6840#0      CC---------------------------------------------------------- 602
                      **                                                          

consensus_6840#1      ----------------------
consensus_6840#2      AAAAAAAAAAAAAAAAAAAAAA 254
consensus_6840#0      ----------------------