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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttattattcttttgactgtacttctagtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagTTCACAGTGCTGTTATGTTAAAGGCTGAGAGCATAGCGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG

Basic information

species Vitis vinifera
transcript Vv03s0038g00540.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 17
gtacgttattattcttttgactgtacttctagtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagTTCACAGTGCTGTTATGTTAAAGGCTGAGAGCATAGCGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG
    |||  ||| |  |||| |         || | |||| |||| |  | |    ||    | || | |||  ||| || |   ||| |  |||||||||           |||| ||||||||||||| ||||||||||||||||||| || || |||| ||||||| |||| ||  | | |  ||||||||||     |||            
----gttgatatacccttgaatc--------gtacagcttatggagttgtatttgctttgtgtttc-tgtttttttataatt--ctttgc-tttaaatttt-----------gcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCATGGCCGACAAGGTTGAGTGGGTAAATAAGATCAAAGCTGTTATTCAGAGCAAAGGGGGTTCTTTCAA

upper sequence: Vv03s0038g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 5
gtacgttattattcttttgactgtacttctagtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagTTCACAGTGCTGTTATGTTAAAGGCTGAGAGCATAGCGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG
    ||| |    | |   |  ||||          || | |||| |  | |  |  | |    | || |||  ||  |  | ||| |   ||| ||| ||          ||||| ||||||||||||| |||||||||||||||||||  | || |||| ||||||| | || ||  | | |  ||||||||||     |||            
----gttgtataccctcaaatcgtaca---------gcctatggagttatatt-tgcttcatggttctgtttttttttatataattctctgctttaatatt----------tgcagCTCACAGTGCTGTTCTGTTAAAGGCTGAGAGCATGCCTGACAAGGTTGAGTGGGTGAATAAGATCAAAGCTGTTATTCAGAGCAAAGGGGGTTCTTTCAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagTTCACAGTGCTGTTATGTTAAAGGCTGAGAGCATAGCGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG
       atttaat  putative branch site (score: 4)
                                    ttttccattt  putative PPT
      tatttaattacaagtg  TA-rich tract