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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT

Basic information

species Vitis vinifera
transcript Vv18s0001g01020.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 14
gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
                                               ||| ||||   |  || | | ||||||  |     |||     |   | |   | ||  |    ||   |  |   |  | ||||||||| |||| ||||| |||||||| ||||||||||||||  | ||||| || ||||||||  | |||||||| |||||||| ||  | || |||||||
----------------------------------------------gtttgtcactaataactattgaaataatcccatgctgatgtctcttttagaa-gtaaatttaatattctatcttt--atctgcagCTTTATTTGGAATTCCTTGACAAATTTGAGAGGAAATTTGTTACACAAGGAGCATATGATACAAGAAACATCTTTCAGTCACTTGACCTAGCATGGACAT

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G181151_T04 (Zea mays), 3'ss of exon 5
gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
     ||| ||||            |   ||    || |||    |||   |     | |   | | |||     |    ||| |     ||| |       |||||   |||  |||   |     |||||||||  | |||||||| ||||| || |||||||| |||||| | ||||| || || || || || ||||||||||||||||||||| | || |||||||
----gtctgtttcgagtgaaataaattcctaagggct-tgttcgggttgcgtgcagacgtaaccgaacaa-gccctaagttagttctttttcagatgtccaaaacctaatgttctgttacttcttgctcagCTTTACTTAGAGTTCCTTGACAAGTTTGAGAGGAAGTTTGTGACACAAGGAGCATACGACACACGGAACATCTTCCAGTCACTAGATCTTGCATGGACAT

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 13
gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
                                         || ||||       |  |   |     | | | ||||  |   | | |  | ||||      || |   |||  |||   ||     ||||||||  | |||||||| ||||| || |||||||| |||||| | ||||| || ||||| || || ||||||||||||||||| ||| | || |||||||
-----------------------------------------gtctgttgcgagtgaaataaattcgtaagttagttctttt---tcagacccccaaa------acttaatgttctgttccttattgcacagCTTTACTTAGAGTTCCTTGACAAGTTTGAGAGGAAGTTTGTGACACAAGGAGCATATGACACACGGAACATCTTCCAGTCACTCGATCTTGCATGGACAT

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 13
gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
||| || | |   ||     | || | | |   |  |     |||| |  |     |  | || |||   | | ||   |  || | | |||     |  | |   ||   |    |||| ||     ||| | ||||| |||||||| ||||| |||||| |||| ||||| || |||||  |||||||||||||  |||| ||||||||||| ||  | || ||| |||
gtacctgt-tgcttcatattttctgtttatgatatttcatcatttgatgctctctgttatcctgtagagcttagtt--tactgagtcagatctgtctgcgtgataatgacttcaaattgt-tacttgacagTTGTATCTCGAGTTCCTTGACAAGTTCGAGCGGAAGTTTGTCGCCCAAGGTCCTTATGATACCCGTGACATTTTCCAGTCACTGGACCTTGCCTGGTCAT

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 13
gtatctctctttctctctcctcctttctgtagaaactatgtgtttgttttttcacatctttctctagcaataatttctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
                                                              |  ||||  | |||  | |    |   ||  ||   | ||||||      || |||  ||    | ||||| ||  |||||||| |||||||||||||||| ||||||||   |||| | ||||| || ||  |  |||||||||||||  | || ||||||||||| |
-------------------------------------------------------------gtaaagcaccagttttgctt----tttgatgccagtatgttaacc---aactgtgtt-ccttccctgcagCTGTACTTGGAGTTCTTAGACAAATTCGAGAGAAAATTTGTCAGTCAAAGCGCTTACGACACAAGAGACATCTTCCAGTCCTTGGACTTGGCGTGGACTT

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|110421686|gb|EC987986.1|EC987986
EST:     AGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTG                         CTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG
genomic: AGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTGgtatctctct ... taaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG
EST: gi|37184152|gb|CF603506.1|CF603506
EST:     AGGCAATGAAAGCTGTGGTCGGAGAAGAAGCACTCTCTTCTGAGGATCTG                         CTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAAT
genomic: AGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTGgtatctctct ... taaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAAT
EST: gi|30128132|gb|CB913471.1|CB913471
EST:     AGGCAATGAAAGCTGTGGTCGGAGAAGAAGCACTCTCTTCTGAGGATCTG                         CTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG
genomic: AGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTGgtatctctct ... taaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG
EST: gi|110421897|gb|EC988201.1|EC988201
EST:     AGGCAATGAAAGCTGTGGTCGGAGAAGAAGCACTCTCTTCTGAGGATCTG                         CTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG
genomic: AGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTGgtatctctct ... taaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatagattaaaatcacaaagtattaacctggggttgggttgtctaaaattcagCTTTATCTGGAGTTCCTAGACAAATTCGAGAGGAAATTTGTGGCTCAAGGGGCTTATGATACCCGCAACATCTTCCAGTCACTAGATTTGGCGTGGACAT
       attaaaatcacaaagt  TA-rich tract