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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaccaccagaaaactgctggaattcccaaagagtaaattatgaccatgcaatgtatgtaaattgattgtatttttgttgcacagGCACTGAGGTTCTATGGAAGCTTTAACGTGACAGTCACGGGCATAACAATTCAAAACAGTCCCCAATGCCACCTCAAGTTTGACAACTGCATGGGAGTCT

Basic information

species Vitis vinifera
transcript Vv01s0127g00400.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0127g00400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G19670.1 (Glycine max), 3'ss of exon 4
-----------gtaaggaccaccagaaaactgctggaattcccaaagagtaa--attatgaccatgcaatgtatgtaaattg-attgtatttttgttgcacagGCACTGAGGTTCTATGGAAGCTTTAACGTGACAGTCACGGGCATAACAATTCAAAACAGTCCCCAATGCCACCTCAAGTTTGACAACTGCATGGGAGTCT
            | |   |    | |||||   |   ||||       | |   |||||    |   || | | || | ||  ||| |  ||||  |||||||||| || |||||||||| || |||||    ||||| || ||||| ||||||||||| ||||| |||||||||||||||||||||||||| |  || ||| 
gtgaggaccttttgaaacctttaacaaaaccaatttgattcatgtttgggagttattattggaacataacgaaggtgatttttatttttatttttatgcacagGCATTGCGGTTCTATGGGAGTTTTAATCCAACAGTTACAGGCATTACAATTCAAAATAGTCCACAATGCCACCTCAAGTTTGACAACTGTAATGGGGTCA

upper sequence: Vv01s0127g00400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G39340.2 (Glycine max), 3'ss of exon 3
gtaaggaccaccagaaaactgctggaattcccaa--agagtaaa--ttatgaccatgcaatgtatgtaaatt--gattgtatttttgttgcacagGCACTGAGGTTCTATGGAAGCTTTAACGTGACAGTCACGGGCATAACAATTCAAAACAGTCCCCAATGCCACCTCAAGTTTGACAACTGCATGGGAGTCT
|| ||||||      ||||   |   |   ||||   || | ||  ||| ||      | || |    |||   | |  | |||||  ||| |||||| || |||||||||| || |||||    ||||| || ||||||||||||||||| ||||| |||||||| ||||||||||||| ||| |  || ||| 
gtgaggacccttttgaaaccttttacaaaaccaatttgattcaagtttaggagttattattggaacataatcaaggtgattttttttatgcgcagGCATTGCGGTTCTATGGGAGTTTTAATCCAACAGTTACAGGCATAACAATTCAAAATAGTCCACAATGCCATCTCAAGTTTGACAGCTGTAATGGGGTCA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagtaaattatgaccatgcaatgtatgtaaattgattgtatttttgttgcacagGCACTGAGGTTCTATGGAAGCTTTAACGTGACAGTCACGGGCATAACAATTCAAAACAGTCCCCAATGCCACCTCAAGTTTGACAACTGCATGGGAGTCT
                              aattgat  putative branch site (score: 4)
                                         tttttgtt  putative PPT
                        tatgtaaattgattgt  TA-rich tract