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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgttgcaaaccctatcaagcacttacatttatttcaggcagacatatggcctccattgacatttttttctttgcatattctatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG

Basic information

species Vitis vinifera
transcript Vv15s0046g03670.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 13
gtttgtgt-tgcaaaccctatcaagcacttacatttatttcaggcagacatatggcctccattgacatttttttctttgcatattctatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG
|||||| | | ||   |  ||  |||||| ||| || ||| |    | |  |||   | ||||   | | || | ||   ||  |   ||    |||||||||||| |||  ||| |||||||  ||||||||||||||||| || ||||||||||| || ||||||| ||||||  |||| |
gtttgtttgtacacggctcattcagcactcacaattgtttaataatgtc-catgtttttcattttgactattgttttgttatcat---tgtgacagCTGAGTGCACTGCTATTGAAGCTTTCAGTCATGCAGGAGAAAATATAGTGTTTGCAAGTGGAAGCCCTTTTGAAAATGTAGATCTTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G39870.1 (Glycine max), 3'ss of exon 13
gtttgtgt-tgcaaaccctatcaagcacttacatttatttca-ggcagacatatggcctccattgacatttttttctttgcatattctatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG
|||||| | | ||   |  ||  |||| | ||| || ||| |       ||| |        |||||| || |||  ||      ||  ||    |||||||||||| |||  ||| |||||||  ||||| ||||||||||| || ||||||||||| || ||||||| ||||||  |||| |
gtttgtttgtacacggctcattcagcaatcacaattgtttaataatgtccatgtttttcattttgacaattgttttgtta-----tcattgagacagCTGAGTGCACTGCTATTGAAGCTTTCAGTCATGCTGGAGAAAATATAGTGTTTGCAAGTGGAAGCCCTTTTGAAAATGTAGATCTTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G08110.1 (Glycine max), 3'ss of exon 13
gtttgtgt-tgcaaaccctatcaagcacttacatttatttcaggcagacatatggcctc-cattgacatttttttctttgcatattctat---------ggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG
|||||| | | |||  |  |||||||||| | | ||  || |   |    ||||   |  |||||||  |||||  |||   | || |||         ||   |||||||||||| |||  ||||||||| |||||||| || |||||||| || ||||||||||| || ||||| | ||| ||  |||| |
gtttgtttgtacaaggctcatcaagcactcataatttcttgata-atgtttatgttttttcattgactatttttcttttttcttttttatatgtatatggggacagCTGAGTGCACTGCTATTGATGCTTTTAAGCATGCTGGGGAAAATATGGTGTTTGCAAGTGGAAGCCCTTTCGAAAACGTAGATCTTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 13
gtttgtgttgcaaaccctatcaagcacttacatttatttcaggcagacatatggcctccattgacatttttttctttgcatattct-atggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG
                   |   |   ||  |  |     | | |    | |  | ||  |  | | | |   ||   ||| || |  ||    ||| |||||||| ||||||||||||||||| || || |||| ||| ||||| ||||||||||| ||||| ||||  || ||| | || |
-----------------gtttgtgtgtttttagcttagcaaagtaatgttgttccatctttgaaaaatctgccctgaacatcttttcgtgtgacagCCGAGTGCACTGCTGCTGATGCTTTCAAACACGCCGGAGGAAACATTGTCTTTGCAAGTGGAAGTCCATTTGAGAACGTTGAACTTG

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|110699592|gb|EE076724.1|EE076724
EST:     CGAGTCTACCAAACCTGCAATTTTTGCAATGTCAAATCCCACCATGAATG                         CTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT
genomic: CGATTCTACCAAACCTGCAATTTTTGCAATGTCAAATCCCACCATGAATGgtttgtgttg ... tatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT
EST: gi|110699700|gb|EE076930.1|EE076930
EST:     CGATTCTACCAAACCTGCAATTTTTGCAATGTCAAATCCCACCATGAATG                         CTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT
genomic: CGATTCTACCAAACCTGCAATTTTTGCAATGTCAAATCCCACCATGAATGgtttgtgttg ... tatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT
EST: gi|33404797|gb|CF210424.1|CF210424
EST:     CGATTCTACCAAACCTGCAATTTTCGCAATGTCAAATCCCACCATGAATG                         CTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT
genomic: CGATTCTACCAAACCTGCAATTTTTGCAATGTCAAATCCCACCATGAATGgtttgtgttg ... tatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggcagacatatggcctccattgacatttttttctttgcatattctatggtgtagCTGAGTGCACAGCTGCTGATGCTTTCAAGCATGCAGGAGAAAATATTGTTTTTGCAAGTGGGAGTCCTTTTGCAAATGTTAATCTAG
                  cattgac  putative branch site (score: 3)
                   attgacattttttt  TA-rich tract