cluster # 5588

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Oryza sativa
cluster # 5588 cluster # 5588 Sequences # 3 consensus # 3

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_5588#0 length = 350 sequences # 1

consensus_5588#1 length = 145 sequences # 1
consensus_5588#2 length = 124 sequences # 1

consensusID : consensus_5588#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 350
fasta sequence

                              [AGAAAAAATAAAAAAAATATTAGATCAAGGTGAAAAAATCCGAAAAAATAACAACCCCCTCATATTAAGTATAAGCTTTCTTTTCCAAGTGGAATCATTCAAAAACATTGAGCTTTGCTACCCCAAATCCCCTCTCCCAATAATTCAAAAAAAAAGATTTATAAAATACAAAATAAATATTAAAAAAATCTGAAAAAATCGAAAAAATAACTAAGAACTAGATTTTTCAAGCTCGATTCGGTTATTCAAACGCGAAACGGATAAGCGGACTCCAAAAAAGGGGGGGTGGCTCTCGACACATTTGTTCAACTGCTGGAATGAGGAAAAGCTCAATGTCATATATAGGGAGG]

[+] EMBL D42472               [AGAAAAAATAAAAAAAATATTAGATCAAGGTGAAAAAATCCGAAAAAATAACAACCCCCTCATATTAAGTATAAGCTTTCTTTTCCAAGTGGAATCATTCAAAAACATTGAGCTTTGCTACCCCAAATCCCCTCTCCCAATAATTCAAAAAAAAAGATTTATAAAATACAAAATAAATATTAAAAAAATCTGAAAAAATCGAAAAAATAACTAAGAACTAGATTTTTCAAGCTCGATTCGGTTATTCAAACGCGAAACGGATAAGCGGACTCCAAAAAAGGGGGGGTGGCTCTCGACACATTTGTTCAACTGCTGGAATGAGGAAAAGCTCAATGTCATATATAGGGAGG]




>consensus_5588#0
AGAAAAAATAAAAAAAATATTAGATCAAGGTGAAAAAATCCGAAAAAATAACAACCCCCT
CATATTAAGTATAAGCTTTCTTTTCCAAGTGGAATCATTCAAAAACATTGAGCTTTGCTA
CCCCAAATCCCCTCTCCCAATAATTCAAAAAAAAAGATTTATAAAATACAAAATAAATAT
TAAAAAAATCTGAAAAAATCGAAAAAATAACTAAGAACTAGATTTTTCAAGCTCGATTCG
GTTATTCAAACGCGAAACGGATAAGCGGACTCCAAAAAAGGGGGGGTGGCTCTCGACACA
TTTGTTCAACTGCTGGAATGAGGAAAAGCTCAATGTCATATATAGGGAGG

consensusID : consensus_5588#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 145
fasta sequence

                              [AAGGTGAAAAAANNCGAAAAAATNNNNNNNNCNCATATTAAGTATAAGCTTTCTNNTCCAAGTGGAATCATTCAAAAACATTGAGCTTTGCTACCCCAAATCCCCNNNCCCAATAATTCAAAAAAAAANATTTATAAAATCAGAA]

[+] EMBL D42287               [AAGGTGAAAAAANNCGAAAAAATNNNNNNNNCNCATATTAAGTATAAGCTTTCTNNTCCAAGTGGAATCATTCAAAAACATTGAGCTTTGCTACCCCAAATCCCCNNNCCCAATAATTCAAAAAAAAANATTTATAAAATCAGAA]




>consensus_5588#1
AAGGTGAAAAAANNCGAAAAAATNNNNNNNNCNCATATTAAGTATAAGCTTTCTNNTCCA
AGTGGAATCATTCAAAAACATTGAGCTTTGCTACCCCAAATCCCCNNNCCCAATAATTCA
AAAAAAAANATTTATAAAATCAGAA

consensusID : consensus_5588#2
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 124
fasta sequence

                              [TTTTACAAGAAAAAATAAAAAAATATTAGATCAAGGTGAAAAAAAACGAAAAAAAAAAAAAAAAACATATTAAGTATAAGCTTTCTTTTCCAAGTTGGAATCATTCAAAAACATTGAGCTTTTT]

[+] EMBL D42283               [TTTTACAAGAAAAAATAAAAAAATATTAGATCAAGGTGAAAAAAAACGAAAAAAAAAAAAAAAAACATATTAAGTATAAGCTTTCTTTTCCAAGTTGGAATCATTCAAAAACATTGAGCTTTTT]




>consensus_5588#2
TTTTACAAGAAAAAATAAAAAAATATTAGATCAAGGTGAAAAAAAACGAAAAAAAAAAAA
AAAAACATATTAAGTATAAGCTTTCTTTTCCAAGTTGGAATCATTCAAAAACATTGAGCT
TTTT

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_5588#0      ------AGAAAAAATAAAAAAAATATTAGATCAAGGTGAAAAAATCCGAAAAAATAACAA 54
consensus_5588#1      --------------------------------AAGGTGAAAAAANNCGAAAAAATNNNNN 28
consensus_5588#2      TTTTACAAGAAAAAATAAAAAAATATTAGATCAAGGTGAAAAAAAACGAAAAAAAAAAAA 60
                                                      ************  ********      

consensus_5588#0      CCCCCTCATATTAAGTATAAGCTTTCTTTTCCAAGT-GGAATCATTCAAAAACATTGAGC 113
consensus_5588#1      NNNCN-CATATTAAGTATAAGCTTTCTNNTCCAAGT-GGAATCATTCAAAAACATTGAGC 86
consensus_5588#2      AAAAA-CATATTAAGTATAAGCTTTCTTTTCCAAGTTGGAATCATTCAAAAACATTGAGC 119
                            *********************  ******* ***********************

consensus_5588#0      TTTGCTACCCCAAATCCCCTCTCCCAATAATTCAAAAAAAAAGATTTATAAAATACAAAA 173
consensus_5588#1      TTTGCTACCCCAAATCCCCNNNCCCAATAATTCAAAAAAAAANATTTATAAAAT-CAGAA 145
consensus_5588#2      TTTTT------------------------------------------------------- 124
                      ***                                                         

consensus_5588#0      TAAATATTAAAAAAATCTGAAAAAATCGAAAAAATAACTAAGAACTAGATTTTTCAAGCT 233
consensus_5588#1      ------------------------------------------------------------
consensus_5588#2      ------------------------------------------------------------
                                                                                  

consensus_5588#0      CGATTCGGTTATTCAAACGCGAAACGGATAAGCGGACTCCAAAAAAGGGGGGGTGGCTCT 293
consensus_5588#1      ------------------------------------------------------------
consensus_5588#2      ------------------------------------------------------------
                                                                                  

consensus_5588#0      CGACACATTTGTTCAACTGCTGGAATGAGGAAAAGCTCAATGTCATATATAGGGAGG 350
consensus_5588#1      ---------------------------------------------------------
consensus_5588#2      ---------------------------------------------------------