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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgttcaaaagcctatttaactgcgcttgtctctagtagttaagtattcaacttatgtgtgtgcatccacttattttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCTGAAATGCTTTGTTGCTTCTGCCCTACACCTCTTAAACAATTTCTTGAGA

Basic information

species Vitis vinifera
transcript Vv06s0004g01090.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatatgttcaaaagcctatttaactgcgcttgtctctagtagttaagt-attcaacttatgtgtgtgcatccacttattttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCTGAAATGCTTTGTTGCTTCTGCCCTACACCTCTTAAACAATTTCTTGAGA
   ||      |      ||||   |  | | |  ||  || |||   | ||||    | ||    | |   | |||| |    | | |||| || || ||||| ||||| |||||||| || ||||||||||| || || || ||||||||||| || || ||  | ||| | ||||||||||||||||
--gtactgcagacctatcattttgttttg-tagaatcatgttgttgcatgattctttctctgctaatcctgtctcttactcaattttcagGGAGATAACAAGTCATTCCTTGTTTGCAAAAAGAAGATGGCAACATCGCCGGATATGCTTTGTTGTTTTTGTCCCCCTCCTTTCAAACAATTTCTTGAGA

upper sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 8
gtatatgttcaaaagcctatttaactgcgcttgtctctagtagttaagtattcaacttatgtgtgtgcatccacttattttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCTGAAATGCTTTGTTGCTTCTGCCCTACACCTCTTAAACAATTTCTTGAGA
|| |   |          |   ||  ||   | ||||  | | |    | | |   || ||   |    |    |||       |||  || ||   | |    |    |||| |    | |   |   ||       ||        |  | | |||   | |  |  || ||| |    | |     
gttttcttgtgtggaagaagaaaatggcaact-tctcctgaaat--gctgtgctgtttctgcccggttttgtttttaaacagACGTTTTGGAGATGGTCACAAATATGAAGTTCGATGAAGAGCCAAACCAGAGCAAGCTCGTTCTACTCTTCGATTCCATCTTGGA--TCCTAATCCTACTGT-----
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110704026|gb|EE081433.1|EE081433
EST:     ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAG                         GGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT
genomic: ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAGgtatatgttc ... ttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT
EST: gi|34543792|gb|CF512024.1|CF512024
EST:     ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAG                         GGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT
genomic: ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAGgtatatgttc ... ttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT
EST: gi|161716446|gb|FC068431.1|FC068431
EST:     ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAG                         GGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT
genomic: ATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAGgtatatgttc ... ttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctagtagttaagtattcaacttatgtgtgtgcatccacttattttcctgttagGGCGACAATAAGTCCTTCCTAGTTTGCAAGAAAAAGATGGCAACTTCTCCTGAAATGCTTTGTTGCTTCTGCCCTACACCTCTTAAACAATTTCTTGAGA
                                   tccacttattttcct  CT-rich tract
         ttaagtatt  TA-rich tract