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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacagtatcttgatttatgtggtattgcaaagttttctatagccatttatacggtataaatatatgtttttcctgtttcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA

Basic information

species Vitis vinifera
transcript Vv08s0007g07570.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA16G04690.2 (Glycine max), 3'ss of exon 14
--------------gtatga-cagtatcttgat--ttatgtgg--tattgcaaagttt--tctatagccatttatacggtataaatatatgtttttcctgtttcttcta------cagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA
               ||| | ||   || || |  ||   |    ||||  | | | |  |  ||   |||| ||                     ||  |||  | |       |||| |||||| ||  | || ||||| ||||||||||||||||||||||| ||||| ||||||||||| || |||||  || | ||||||||  | ||||| |
gtatgaattgctagttataatcaccctcatgctcattgaataatctattaaataatctattacatgctcattgatgaaccccccccccccccccccccccttttctttggttacgcagAAGCACCCAGCAATTACACCTCCCAGCTATCCTCAAGTACAGGCACCTATTGTTAATAATCCTGCTTTTTGGGAGAGGGTTGGTCTTGAACCATTTGGTA

upper sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA19G28580.2 (Glycine max), 3'ss of exon 10
----gtatgacag--tatcttgatttatgtggt-attgcaaagttttctatagccatttatacggtataaatatatgtttttcctgtttcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA
    | ||  |    |||  | |      || | |||| ||| | |  || |  | || ||  | | |   | | |  | ||    ||  || | |||| ||| ||  |  | || ||||| || |||||||||||||||||||| ||||| ||||||||||| || |||||  |  | ||||||||  | |||||||
gtatgcattgctagttataatcaccctcatgctcattgaaaaatctattacatgctttgatg-gattt---tttctcctcttttctttggttatgcagAAGCATCCGACAATTACACCTCCTAGTTATCCTCAAGTACAGGCACCTATTGTTAATAATCCTGCTTTTTGGGAGAGAGTCGGTCTTGAACCATTTGGCA

upper sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA16G26850.1 (Glycine max), 3'ss of exon 15
gtatgacagtatcttgatttatgtggta-------ttgcaaagttttctatagccatttatacggt-ataaatatatgtttttcc--tgtttc--ttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA
|||||    | ||||| |||  ||  |        ||    | |  ||| |   |  | ||| | | ||||    || |||| ||  |||||   || | ||||  |||||| |  | || ||||| || | |||||||||||||||||| ||||| ||||||||||| || |||||  |  | ||| | ||    | |||||
gtatgc---tttcttggttttagtaatcctcatttttattgaatactctgttatctataataagattataagaccattttttccctttgttttggttatgcagAAACACCCTACGATAACACCTCCTAGTTTTCCTCAAGTACAGGCACCTATTGTTAATAATCCTGCTTTTTGGGAGAGAGTAGGTATCGAACAATATGGCA

upper sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA02G07830.1 (Glycine max), 3'ss of exon 14
gtatgacagtatcttgatttatgtggta-------ttgcaaagttttctatagccatttatacgg---tataaatatatgtttttcct--gtttc--ttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA
|||||    | ||||| |||  ||  |        ||    | |  ||| |   |  | |||      |||||    || |||| |||  ||||   || |  |||  |||||| |  | || ||||| || | ||||||||||||||| || ||||| ||||||||||| || |||||  |  | ||| ||||    | |||||
gtatgc---tttcttggttttagtaatcctcatttttattgaatactctgttatctataatataagattataagaccattttttcccttggttttggttatgtagAAACACCCTACGATAACACCTCCTAGTTTTCCTCAAGTACAGGCTCCTATTGTTAATAATCCTGCTTTTTGGGAGAGAGTAGGTATTGAACAATATGGCA

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|110363041|gb|EC926607.1|EC926607
EST:     ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|110367437|gb|EC931370.1|EC931370
EST:     ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|352764974|gb|FQ473622.1|FQ473622
EST:     ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|110694277|gb|EE071242.1|EE071242
EST:     ACAAGCTTCCTCAACCTAAAGACTCAGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTGCAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|110390511|gb|EC955423.1|EC955423
EST:     ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|352768017|gb|FQ467416.1|FQ467416
EST:     ACAAGTTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
EST: gi|352773888|gb|FQ473020.1|FQ473020
EST:     ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCA                         AGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT
genomic: ACAAGCTTCCTCAACCTAAAGACTCGGAACGTGCAAGGAACTATACTCCAgtatgacagt ... tcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctatagccatttatacggtataaatatatgtttttcctgtttcttctacagAGGCACCCTGCTGTGACCCCTCCAAGCTATCCTCAAGTACAGGCACCCATTGTCAATAATCCTGCCTTCTGGGAACGGCTGGGTCTTGATACTTTTGGCA
                              tatgtttttcctgttt  CT-rich tract
            atttatacggtataaa  TA-rich tract