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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtactcacacttgactcatctttttgtttggtatttttatggagcgtttggattgagagaaatgaaaagaaaatgctcaaaaatggtctcactttcttcaactatgttttcttctcatttctcttccttctctcttgctaattttctcatttttgtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA

Basic information

species Vitis vinifera
transcript Vv07s0005g01710.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G01450.1 (Glycine max), 3'ss of exon 2
gtattgtactcacacttgactcatctttttgtttggtatttttatggagcgtttggattgagagaaatgaaaagaaaatgctcaaaaatggtctcactttcttcaactatgttttcttctcatttctcttccttctctcttgctaattttctcatttttgtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA
                                                                     |||| |||||   |||| ||    | |     |  |   ||   |   |  | ||    |  | | |    |     || | |   |       || |||||| |||||||||||||||||||  |||||||||||||||||||| |||||||| | |||||  |||||   | |||| || || ||||| ||||| |||
---------------------------------------------------------------------aaaacaaaataaacaaatatataattataaaatagataaataaataaatagccttaacttaacatttggaatatactttgtgtggatcaatcacatgtagGAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAACGTGTGGAGAGATCTTTCACTGATCCAAGCGTTGTAGTGACAACCTATGAAGGCCAA

upper sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G37940.1 (Glycine max), 3'ss of exon 2
gtattgtactcacacttg-actc----atctttttgtttggtatttttatggagcgtttggattgagagaaatgaaaagaaaatgctcaaaaatggtctcactttcttcaactatgttttcttctcatttctcttccttctctcttgctaattttctcatttttgtggatt-tagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA
||| | |||| ||||||  | ||    |||  |         | |||  | |   |||    ||   |     |    ||  |   |  | | |    |          ||  ||   | | |   |  | ||      | || ||   | ||   || | |   |  ||| |||||| |||||||||||||||||||  |||||||||||||||||||| |||||| | | ||| |  || ||   |||||| || || ||||||||||| |||
gtactatactaacacttttattcttcaatcaatacacgcaaaactttgcttgcttgttccctttttcactttcggttcgattaaaatttagatt---ttagaccaaccaaaaaataaatgcattgtaaatatcagaaa-cactattaacatttgaatcgtgtgcatatattatagGAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAACGTGTGGAGCGATCTTTTAGCGACCCAAGCATTGTGGTGACAACCTACGAAGGACAA

upper sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G40560.1 (Glycine max), 3'ss of exon 2
gtattgtactcacacttgactcatctttttgt-ttggtatttttatggagcgtttggattgagagaaatgaaaagaaaatgctcaaaaatggtctcactttc--ttcaactatgttttcttctcatttctcttccttctctcttgctaattt--tctcatttttgtggattta-----gGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA
                              ||  |   | ||||||       ||  ||  |   | |        |  |||| |   |   |  |||||||  ||| | ||   |||    |     |    |        |||  ||| |  | | |    |||| || ||     |||| |||||||||||||||||||  |||||||||||||||||||| |||||| | | |||||  || ||   |||||| || || ||||||||||| |||
------------------------------gtactaacacttttatt-----cttcaatcaatcaatacacgctttacttgcttattcacttttccactttcggttcgattaaaatttagaatttaaaccacccaaaaataattgtaaatataatttgaaccgtgtgcatatattatagGAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAACGCGTGGAGCGATCTTTCAGCGACCCAAGCATTGTGGTGACAACCTACGAAGGCCAA

upper sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G01420.1 (Glycine max), 3'ss of exon 2
gtattgtactcacacttgactcatctttttgtttggtatttttatggagcgtttggattgagagaaatgaaaagaaaatgctcaaaaatggtctcactttcttcaactatgttttcttctcatttctcttccttctctcttgctaattttctcatttttgtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA
                                                                   |      ||    || | |    | |  |  | | |||| ||  | ||      ||   |   | |    | | |   ||  | |   |       || |||||| |||||||||||||||||||  ||||||||||||||||| || |||||| | | |||||  |||||   | |||| || || ||||| ||||| |||
-------------------------------------------------------------------ttggtttaactcacttacacccagacataact-catcaa-taaatattaaataaataaatagccttaacatttggaatatactatgtatggatcacatgtagGAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAGCGTGTGGAGCGATCTTTCACTGATCCAAGCGTTGTAGTGACAACCTATGAAGGCCAA

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|30125780|gb|CB911119.1|CB911119
EST:     AGATGGAGAAAGTACGGCCAAAAAGCTGTGAAAAACAGCCCCTTTCCTAG                         GAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGA
genomic: AGATGGAGAAAGTACGGCCAAAAAGCTGTGAAAAACAGCCCCTTTCCTAGgtattgtact ... gtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGA
EST: gi|110730179|gb|EE106959.1|EE106959
EST:     AGATGGAGAAAGTACGGCCAAAAAGCTGTGAAAAACAGCCCCTTTCCTAG                         GAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGA
genomic: AGATGGAGAAAGTACGGCCAAAAAGCTGTGAAAAACAGCCCCTTTCCTAGgtattgtact ... gtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttctcatttctcttccttctctcttgctaattttctcatttttgtggatttagGAGTTACTATCGTTGCACCAGTGCATCATGTAATGTGAAGAAACGAGTGGAGAGGTGTTTCAAGGATCCGGCCATTGTCGTAACCACCTACGAAGGTCAA
                          tgctaat  putative branch site (score: 2)
        tttctcttccttctct  CT-rich tract
                             taattttctcattttt  TA-rich tract