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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaagagaatatattgtatttgggtattaatattatctttaagaattatataatattacctggaattgactgccaaataattataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA

Basic information

species Vitis vinifera
transcript Vv01s0010g00920.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: 13113.m00214 (Oryza sativa), 3'ss of exon 4
gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaagagaatatattgtatttgggtattaatattatctttaagaattatataatattacctggaattgactgccaaataattataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
                                                  ||  ||     | || ||  |    |     ||    |  ||||||| |  ||| | | ||| ||      || ||||| ||  | | | || | ||   |  | |||     ||  || | || || |||||  |||||||||| |||||||||||||| ||  |||||||| | || || || ||||||||||||||| ||  |   ||||| ||||
------------------------------------------------gtatgctttgtcctcgtcagttt----atcttcaggtgtttctgtattttg--attgacaatatttt----gtttctataaaat--cttagtatcgcctattatgttatt-----ttctagATAGAAGACCATGAAATTGCACATGTGGCTGCAGTTAGTGCAGGAGATGATTATGCTGTTGGAAATATGATTTCTGATGCTTTTAAAAGAGTAGGCAGGA

upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G042253_T01 (Zea mays), 3'ss of exon 3
gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaagagaatatattgtatttgggtat-taatattatctttaagaattatataatattacc-tggaattg----actgccaaataatt--ataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
                                                                                       |||  | || | || | ||| | | | |||  |   | | |||    ||  ||||  |     | ||     |||     |   ||  || |||| || |||||  |||||||||| |||||||||||||| || ||||||||| | || || || ||||||| ||||||| ||| |   ||||| ||  
--------------------------------------------------------------------------------------gtatgattttcgagtttgtaaaagtttttttttgtgctctgtaaatccactgtggagatatcttagtggtgtgtaacctgttgttttctagATTGAAGACCATGAAATTGCACATGTGGCTGCAGTTAGTGCGGGAAATGATTATGCTGTTGGAAATATGATTTATGATGCTTTTCAAAGAGTAGGTAGAC

upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G09520.1 (Glycine max), 3'ss of exon 4
gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaagagaatata-ttgt--atttgggtattaatattatctttaagaattatataatattacctggaattg---actgccaaataattataaatt--------------------gcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
   | |   ||| |  |||  ||||    |||| ||  | |  |      ||| || |||||| | || ||   ||  || |  || |   ||   || | | | | | | |  | |||      |    | | || | |  | |||   ||||  ||||  |  | ||||                    | ||||||||||||||||||||||| ||||||||||||| |||||||||||||||||| |||| || ||||||||||| || ||| | |  || ||||| || |
--gtaagttctactcattagtttttttaaaaaagaaaaacacct----ggattattgaaaattttgagaatcacaatgaaaattatctggctgcagatgttgatttaattgtgcttttttctgcctgccaattgttgcttatagttggaaactggaaaatcttgctgaattcaacaacattggctgcacttgtagGTTGAGGATCATGAGCTTGCAGATGTTGCTGCAGTCAGTGCTGGGAATGATTATTCAGTTGGAAACATGATTTCCGAGGCTCTGCACCAAGTAGGCAGAA

upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G13980.1 (Glycine max), 3'ss of exon 4
----gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaaga--gaatatattgtatttgggtattaat-----attatctttaagaattatataatattacctggaattgactgccaaataattataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
    ||   |    |  || || | |||||   ||       || ||| | ||| |||  ||  |   | |  | ||   || |    || |  |||||  ||   |  |        ||  |   | | | ||  | | |  |  ||| |    ||  |  | |   |  |  ||| |||||||||||||||| |||||| ||||||||||||| |||||||||||||||||| |||| || |||||||||||||| ||| | |   | ||||| || |
gtgagttctactcattattattctgttttctaaaactcctggatgattga-aaatttgagaatcaaaatgaatactgctgcagatgttgatttaattgtgctttttttctgcctgccaatcgttgcttatagttggaaagt-ctggctgaatacaacaac--attggctgcac-ttgtagGTTGAGGATCATGAACTTGCAGATGTTGCTGCAGTCAGTGCTGGGAATGATTATTCAGTTGGAAACATGATTTCTGAGGCTCTGCATAAAGTAGGTAGAA

upper sequence: Vv01s0010g00920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G26230.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatcaagactatttcttatattttcatgaaaaaaattataattcagaaaattgttaaaaattgtaagcattgaaacaaagagaatatattgtatttgggtattaatattatctttaagaattatataatattacctggaattgactgc-caaat-----aattataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
                                                                                 |  ||  ||    |||   | || | | ||    | |||||    | | |||| || |  || |  |  ||||      |  |     |||||| |||| |||||||||||||| |||||||| ||||||||||| |||||||| ||   |||||| |||||||||||  ||||| ||| ||| ||||||||||
-----------------------------------------------------------------------------gtgaatgatccatgccttttaactcttgagagtactcatgagaatggagtta-attagctagctttaatagtgcaaaccgcgaacctcgtgtttgcagATTGAAGATCATGAGCTTGCTCATGTTGCAGCAGTTAGTGCGGGGAATGACTACGAAGTGGGAAACATGATTTCCAATGCTTTTCAACAAGTAGGAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagaattatataatattacctggaattgactgccaaataattataaattgcagGTTGAGGATCATGAGCTTGCACATGTTGCTGCAGTTAGTGCTGGGAATGATTATACAGTGGGCAACATGATTTCTGATGCTATTCGACAGGTAGGAAGGA
                         aattgac  putative branch site (score: 3)
     aattatataatattac  TA-rich tract