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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccacacctacagattccataatctcatgtcaagcttatttctaaatggttttgattcagctaacaataatagttgctttatcttttcagagggaaagaataatcgcgtgtcaagcttatttgtaaatgcttttgatttagctaacaataatagttgctttattttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAAGAGACCGAAAACAAATTGCCTTCCACGAGCATCTTAGATGACTCTGAAA

Basic information

species Vitis vinifera
transcript Vv16s0039g02260.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g02260.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G106931_T01 (Zea mays), 3'ss of exon 12
gtaccacacctacagattccataatctcatgtcaagcttatttctaaatggttttgattcagctaacaataatagttgctttatcttttcagagggaaagaataatcgcgtgtcaagcttatttg--taaatgcttttgatttagctaacaataatagttgctttattttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAAGAGACCGAAAACAAAT-TGCCTTCCACGAGCATCTTAGATGACTCTGAAA
                                                                                                    ||||||   ||| |   ||||||||  ||||| ||  |  || |  |    ||  |  | |   | | ||  ||| | |||||||||||||| ||||||||||||||||| |||||||| ||||| |||| | ||    | |          |  |  |   |||  |     || 
-------------------------------------------------------------------------------------------------gtaaataattttgtgcc---cttatttgaataaattctgatagttca--tgttgatgctgatggaggtctcttcacagCGAATGCATGAGTATGCAGAACATGGACTTGCTGCTCATTGGCTGTATAAGGAGAGCAAAGTTGAGTACAGAAGTAGCATGAGTAAGAGAATAAGACAAA-

upper sequence: Vv16s0039g02260.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA11G01410.1 (Glycine max), 3'ss of exon 3
gtaccacacctacagattccataatctcatgtcaagcttatttctaaatggttttgattcagctaacaataatagttgctttatcttttcagagggaaagaataatcgcgtgtcaagcttatttgtaaatgcttttgatttagctaacaataatagttgctttattttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAAGAGACCGAAAACAAATTGCCTTCCACGAGCATCTTAGATGACTCTGAAA
                                                                                       | |  ||  |    | |   |  ||   || ||| | ||  ||  ||| | | | | ||     |||  ||  ||| | ||   ||||||||||||||| ||| ||||||||||||||||||||||||||||| || || || |  ||    ||    ||||    || | | |||||  ||||||
--------------------------------------------------------------------------------------gtgccaagttacttcacatgtgt-tgcagaggttactcgtttattttttagttcttgatattttcaattattatttt-tcttgatagAGGATGCATGAGTGTGCTGAACATGGACTTGCTGCACATTGGCTTTACAAGGAAACTGGGAATCCTTTTTTATCCATAGACAGCATGGATGAACCTGAAA

upper sequence: Vv16s0039g02260.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G43940.1 (Glycine max), 3'ss of exon 3
gtaccacacctacagattccataatctcatgtcaagcttatttctaaatggttttgattcagctaacaataatagttgctttatcttttcagagggaaagaataatcgcgtgtcaagcttatttgtaaatgcttttgatttagctaacaataatagttgctttattttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAAGAGACCGAAAACAAATTGCCTTCCACGAGCATCTTAGATGACTCTGAAA
                                                                                       | |  ||  |    | |   |  ||   || ||| ||||  ||  ||| | | | | ||     | |  ||  |||  ||  | ||||||||||||||| ||| ||||| ||||||||||||||||||||||| || || || |  ||    ||    ||||    || | | |||||  ||||||
--------------------------------------------------------------------------------------gtgctaagttatttcacatgtgt-tgcagaggttacttgtttatattttagttcttgatattttcatttattattttgcttgat-agAGGATGCATGAGTGTGCTGAACAAGGACTTGCTGCACATTGGCTTTACAAGGAAACTGGCAATCCTTTTTTATCCATAGACAGCATGGATGAACCTGAAA

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|71866418|gb|DT015473.1|DT015473
EST:     CAGTACAGGGCCCTGACAACTCACCTTTGGAGGTTCAAATAAGGACACAG                         AGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAA
genomic: CAGTACAGGGCCCTGACAACTCACCTTTGGAGGTTCAAATAAGGACACAGgtaccacacc ... attttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttgtaaatgcttttgatttagctaacaataatagttgctttattttttcagAGGATGCATGAGTATGCGGAACATGGACTTGCTGCACATTGGCTTTATAAAGAGACCGAAAACAAATTGCCTTCCACGAGCATCTTAGATGACTCTGAAA
                       agctaac  putative branch site (score: 2)
                                      ttgctttattttttc  putative PPT
                              aataatagttgcttta  TA-rich tract