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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC

Basic information

species Vitis vinifera
transcript Vv10s0116g01200.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g14440.1 (Oryza sativa), 3'ss of exon 3
gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
||||||  |||  | ||        |   || |  | |  |  |     || |  |||  ||    || |||   | |  |    | ||  |   |||||||| | ||||| ||||||||| | ||||| || ||||| ||||||||||| ||||| || || || || |||||||| || ||||||||    |||||||
gtaagaccccaccactagcaaccaca---tcgatcacaggcatt-----ttctcatcgagacgtgctgaattccaaatcgt----tttggttccgtgcagATCGCCGATGGGTGCCAATGGAGGAAGTACGGTCAGAAGATGGCGAAGGGAAACCCTTGTCCACGCGCGTACTACCGCTGCACCATGGCCACCGGCTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G871347_T02 (Zea mays), 3'ss of exon 3
-------------------------------gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
                                |     |    |  |    ||     ||    ||  |     ||   | | |  |  |  |  | |   ||   ||  || ||| |||       ||||||| | || || ||||| ||||||||||| |||||||| ||||| ||||| |||||||||||||||||||||||||| || ||||||||    |||||||
gtaaggaggagtttttgtttttcctttctctttctttctttctttctttctttcttctatctttctttattttttcctttctttctttctttctttctttcttctcat--atggaagatgatcgtgggcagATCGCCGACGGCTGCCAGTGGCGCAAGTACGGGCAGAAGATGGCCAAGGGCAACCCATGCCCGCGAGCCTACTACCGGTGCACCATGGCCAACGGCTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G11680.2 (Glycine max), 3'ss of exon 4
gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
||| | ||   ||||| ||  |     ||  |  |   |    |    |    | |      | | |  |     ||||   || |   | |   ||||||||| |||||||||||||||| | || ||||| || |||||||| |||||||| |||||||| ||||| |||||| |||| || ||||||||||| ||||
gtacgtatt--ataattatact-----atgtatattacatgttttcattaaccaattaagtaattctcaaactaaattatctgatttattattgttgcagATCAGTGATGGATGCCAATGGAGAAAATATGGACAAAAAATGGCCAAGGGGAATCCATGCCCTCGAGCATACTACAGATGCACTATGGCAGTTGGTTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G00820.1 (Glycine max), 3'ss of exon 4
gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
||| | ||   ||||| |  | | | |  |   |   ||||  |    |  ||  |  ||| | ||         ||||   || |     |   ||||||| | |||||| ||||||||| | || ||||| || |||||||| |||||||| |||||||| ||||| |||||| |||| || ||||||||||| ||||
gtacgtatt--ataattaaatataatatgttttcatcaaccaattaattaagttattctcaaactg--------aattatctgatttatcattgttgcagATTAGTGATGGGTGCCAATGGAGAAAATATGGACAAAAAATGGCTAAGGGGAATCCATGCCCTCGAGCATACTACAGATGCACTATGGCAGTTGGTTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G01490.1 (Glycine max), 3'ss of exon 4
gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
||| ||||| ||| ||    | ||||   |  | ||| |   |    | |  |     | | ||| | | |     |||||      | | ||  | ||||||| |||||| ||||||||||| || ||||| || || ||||| ||||| ||||| || || ||||| |||||| |||| || ||||||||||||||||
gtatgaatc-aatcat----tctgaattatagattagcatagc---aagtgatgaatat-atagtatagctctaacttaattat---tatttatttccagATCAGTGATGGGTGCCAATGGCGAAAATATGGACAAAAGATGGCTAAGGGAAACCCTTGTCCTCGAGCATACTACAGATGCACTATGGCAGTTGGCTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G39250.1 (Glycine max), 3'ss of exon 4
gtaagaatccaataataatgtttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgc-agATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
                       | | ||| |  || |     | | ||    |||  | |   | | |  | |   |||   | ||  | | | | | |||||| |||||| ||||||||||| || ||||| || || ||||| ||||| ||||| || || ||||| |||||| |||| |||||||||||||| ||||
-----------------------gtagattaatttatatagattgtcatagcaagtgatgaatatatagtatagctctaacttattaattattatttccagATCAGTGATGGGTGCCAATGGCGAAAATATGGACAAAAGATGGCTAAGGGAAACCCTTGTCCTCGAGCATACTACAGATGCACCATGGCAGTTGGTTGCC

upper sequence: Vv10s0116g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S47_251V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------gtaagaatccaataataatg-tttgaaaattcaactagaacccctctgatttgtagtcgtcacagtgtggattgggat---taatcgaatatg----tgtaactgc---agATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
                    ||  |  |   |    | | ||| |||||||| |        |  || ||| |  |||| |  || |  || |||     | |||  | |||    | || |||    |||||| ||| |||||||| ||| | || ||||| ||||| |||||||| |||||||| || || || || ||||||||||| ||| | ||    ||||| |
gtacgttcctgtccttttcatagaacccttctctacacgcttttaaaattcagcaccggattcagtgcttt-tcatcgttaaggttta-atcgggtcccatgatctcacatgatgatttatctgttttagATCAATGACGGATGCCAGTGGAGGAAATATGGTCAGAAGATGGCGAAAGGGAACCCCTGTCCTCGTGCATACTACCGATGCACCGTTGCGCCGGGCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttgtagtcgtcacagtgtggattgggattaatcgaatatgtgtaactgcagATCACTGATGGATGCCAATGGCGCAAGTATGGGCAGAAAATGGCGAAGGGGAACCCATGCCCGCGAGCCTACTACCGATGTACCATGGCAGTTGGCTGCC
                                           gtgtaac  putative branch site (score: 3)
                              attaat  TA-rich tract