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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTGCTTATGTCTCTCAAGTGCACAAGGTTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaatgaccttgcttttaaggtttctaatagtgtgctatatgatggccaaattatgggaacctcttccaatatttttagaaacgaaagaaggtg...

Basic information

species Vitis vinifera
transcript Vv13s0019g04190.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 7
GTTCTTGCTTATGTCTCTCAAGTGCACAAGGTTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaatgaccttgcttttaaggtttctaatagtgtgctatatgatggccaaattatg--ggaacctcttccaatatttttagaaacgaaagaaggtg
 ||||||| |||||||| ||||| ||| | ||||||||||| || || ||||| |||||||| | | |  ||||||| |||||     |  |         | |||  || |   | || |  |   |  |   || | | |   |||       || || ||  | ||   |      | ||
ATTCTTGCCTATGTCTCGCAAGTTCACCATGTTGTACTTCCAGAAGAATTGGTAGACCACGAGAATTTAACACTCGAACAGgtgcaaatcctttttcaaagtataat-ttacatgttgttttttgagtagttttcatactgtaacggaggtaaaacccattttggt-gacctggttcttgctg
















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|110372418|gb|EC936581.1|EC936581
EST:     GGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: GGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|30326726|gb|CD009988.1|CD009988
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|156737328|gb|EV241442.1|EV241442
EST:     TTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATA-TGTGAGGGTGCCCAGATCCTGAATATGCAGAGAAGAT
genomic: TTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGA-GGTGCCCAGATCCTGAATATGCAGAGAAGAT
EST: gi|32249612|gb|CD715431.1|CD715431
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|32247169|gb|CD712988.1|CD712988
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|110395213|gb|EC960849.1|EC960849
EST:     GAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: GAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|30325548|gb|CD008810.1|CD008810
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|32248621|gb|CD714440.1|CD714440
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|156737322|gb|EV241443.1|EV241443
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
EST: gi|30324763|gb|CD008025.1|CD008025
EST:     TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG                         ATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG
genomic: TTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaa ... acattgccagATAGAGAGTAATATTGTGAGGTGCCCAGATCCTGAATATGCAGAGAAGATG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTTGCTTATGTCTCTCAAGTGCACAAGGTTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAGgtatgcttaatgaccttgcttttaaggtttctaatagtgtgctatatgatggccaaattatgggaacctcttccaatatttttagaaacgaaagaaggtg

- - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagaa