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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG

Basic information

species Vitis vinifera
transcript Vv17s0000g02570.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 3
gtatgtagtcttgcca----aagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatt-tttgaaagcta-------gaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
||| ||| ||| || |    | | |||  | |  | || |    || ||| |  | |    || |||   |  |      |    |   || |||||    | ||  | |   |        ||  |||  || |     ||||  | || || | ||||||||||||||||| || ||||| ||||| |||||||||||||| || |||||||| || 
gtaagtattctagcaaattgatgcacttattatttctgttttgcttttgcttctgccttttaagattttctgctggaaagtgcaatcaaattctttatttctgttccagaatcattcttctaaacattttgctgactgattttacctgctcttactaagGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTTTGTGGTTCTTTTTTCTCAAAA

upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 3
--gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattac---ttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
  |  || |   |||    |  |      ||    | | ||||| |  ||   |    ||   |||    || |  |     |||  |   | |  |  |  |||      |   || || |  || |     ||||| ||||||    ||||||||||||||||| || ||||||||||| |||||| | ||||| || |||||||| || 
gtgagtgcaccattgtgtgaccatgttgaacg---gttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggtttctc---cctaaacctgttgctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA

upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 3
gtatgtagtcttgcca----aagtactcctgacatttgctgcatttctgcatacggccgagaaaattactt-------agtctcttttattttatgat----actttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttca--aagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
||| ||| ||| || |    | | |||  | |  | || |    |||||| |  | |    || |||  |        |||    |  | || || ||      |  | |||  |      ||| | | |||  || |     ||||| |||| | | |  ||||||||||||||||| || ||||| ||||| |||||||| ||||| || |||||||| || 
gtaagtattctagcaaattgatgcacttattagttctgttttgcttctgcttttgtcttttaagatttttagctggaaagtgcaatcaaattcattatttctgttccagaatcatcctt--ctaaatattttg-ctgactgattttatctactctcttactaagGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTATGTGGTTCTTTTTTCTCAAAA

upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G18040.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
                                            | || |  |  |   || |  | ||| |||||| || ||| || || | |    ||        |     | | |  ||  ||  || ||  ||| ||   ||||||||||||| ||  ||||||||||||| || |||||||||||||| || |||||||| 
--------------------------------------------gtatgctactcaatgaaatcataagtttctttttttctat-attctctgatgcatt--------aagtgttgtgatcaa--atggtt-ttcgcttctttgcagGACTATGTTGCTACAAGATGGTACCGTGCGCCAGAACTTTGTGGCTCTTTCTTCTCCAAA

upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
                                ||   ||||| |    | | | | ||||  |  | |||  | ||    | |   |   || || |  | |    ||    ||| | |||||   | |||            | |||| |||||||| || || ||||||||||| |||||||| ||||| || |||||||| || 
-------------------------------gtgagtcatttatcaccaagactgtgaaagct--taagttgcattagggtaacattctgtttaagtgctggtggactc---actcttactaactctgttt----------caatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG
                         aactaat  putative branch site (score: 2)
                                    tttatttactttttc  putative PPT
                  aaactttaactaatca  TA-rich tract