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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttttcatcttttgattgtacttttggtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCGCAGTGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG

Basic information

species Vitis vinifera
transcript Vv12s0035g01740.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 17
gtacgtttttcatcttttgattgtacttttg----gtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCGCAGTGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG
                |||||  |||  |||    || | |||| |||| |  | |    ||    | || | |||  ||| || |   ||| |  |||||||||           ||||||||||||||||||||||||||||||||||||   |  || |||| ||||||| |||| ||  | | |  ||||||||||     |||            
---------------gttgat-atacccttgaatcgtacagcttatggagttgtatttgctttgtgtttc-tgtttttttataatt--ctttgc-tttaaatttt-----------gcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCATGGCCGACAAGGTTGAGTGGGTAAATAAGATCAAAGCTGTTATTCAGAGCAAAGGGGGTTCTTTCAA

upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 5
gtacgtttttcatcttttgattgtacttttggtcctgcttgtggactgttgtcattttcccctctcctatttaattacaagtgattttacacttaaattttccatttatcatgcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCGCAGTGGATAAGGCTGAGTGGTTAAACAAATTGAGAAATGTTATTCAGCCTTCAGGTCAAGTGAAGGG
    ||| |  | | |   || ||||          || | |||| |  | |  |  | |    | || |||  ||  |  | ||| |   ||| ||| ||          ||||||||||||||||||| |||||||||||||||||      || |||| ||||||| | || ||  | | |  ||||||||||     |||            
----gttgtataccctcaaatcgtaca---------gcctatggagttatatt-tgcttcatggttctgtttttttttatataattctctgctttaatatt----------tgcagCTCACAGTGCTGTTCTGTTAAAGGCTGAGAGCATGCCTGACAAGGTTGAGTGGGTGAATAAGATCAAAGCTGTTATTCAGAGCAAAGGGGGTTCTTTCAA
















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|30135425|gb|CB920763.1|CB920763
EST:     GCAAAGTTCCATATAAGACAGTTCTGAAAG                         CTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCGCAGCGGATAAGGCTGAAT
genomic: GCAAAGTTCCATATAAGACAGTTCTGAAAGgtacgttttt ... tatcatgcagCTCACAGTGCTGTTGTGTTAAAGGCTGAGAGCGCAGTGGATAAGGCTGAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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