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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaaagttgctatttttagccacatggattatatagtggtgtttcttggcgttcaatataggggttatttctccctttatctgatttgtccctctctttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCTACGTGCCTTGGCCTCATGGGGGCTCTGTTTATTGGAATCCCTGTCAAGG

Basic information

species Vitis vinifera
transcript Vv11s0016g03660.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g03660.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G09270.2 (Glycine max), 3'ss of exon 6
gtactaaagttgctatttttagccacatggatta-tatagtggtgtttct-tggcgttcaatataggggttatttctccctttatctgatttgtccctctctttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCTACGTGCCTTGGCCTCATGGGGGCTCTGTTTATTGGAATCCCTGTCAAGG
                        |  |  || | || | |||||  ||| |  | || | || |  |   ||||        |  |||||      |||||| |    |||||||||||||| |||||  |||| || | |||    ||||| ||| |||| || |||||||| || ||||| ||| | |||||||||||||||||||| |
----------------------gtatgtaaatcactaaattggtgcatctgtctcattgactagactgaaaattt--------acttgatta----ttctcttgaatggcagGTTTCTCCTGCTTTTGTGCGGGGCACCTTTGGAGCTTTCATCCAGATTGCCACATGCCTTGGTCTAATGGGAGCTTTATTTATTGGAATCCCTGTCAAAG

upper sequence: Vv11s0016g03660.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G32510.1 (Glycine max), 3'ss of exon 6
gtactaaagttgctatttttagccacatggatta-tatagtggtgtttcttggcgttcaatataggggttatttctccctttatctgatttgtccctctctttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCTACGTGCCTTGGCCTCATGGGGGCTCTGTTTATTGGAATCCCTGTCAAGG
                        |  |  || | || | || ||  |||  |   |  |        ||  ||     ||||  |||||      ||||||||    |||||||||||||| |||||  |||| || | |||    ||||| ||| |||| || |||||||| || ||||| ||| | |||||||||||||||||||| |
----------------------gtatgtaaatcactaaattgttgcatctgtgtcattgac-------ttgattgaaaatttacttgatta----ttctctttaatggcagGTTTCTCCTGCTTTTGTGCGGGGCACCTTTGGAGCTTTCATCCAGATTGCAACATGCCTTGGTCTAATGGGAGCTTTATTTATTGGAATCCCTGTCAAAG
















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|161712692|gb|FC062264.1|FC062264
EST:     GAACTGGAATGGGTGTGGGCCCCCCTGTAGCTTCTCTCTATGTGACAGAG                         GTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCT
genomic: GAACTGGAATGGGTGTGGGCCCCCCTGTAGCTTCTCTCTATGTGACAGAGgtactaaagt ... ttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCT
EST: gi|110723682|gb|EE101272.1|EE101272
EST:     GAACTGGAATGGGTGTGGGCCCCCCTGTAGCTTCTCTCTATGTGACAGAG                         GTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCANCTTGCT
genomic: GAACTGGAATGGGTGTGGGCCCCCCTGTAGCTTCTCTCTATGTGACAGAGgtactaaagt ... ttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatataggggttatttctccctttatctgatttgtccctctctttataatcagGTTTCTCCTGCATTTGTAAGGGGTACTTATGGCAGCTTCATTCAGCTTGCTACGTGCCTTGGCCTCATGGGGGCTCTGTTTATTGGAATCCCTGTCAAGG
                          atctgat  putative branch site (score: 4)
            ttatttctccctttat  CT-rich tract
                                          tctttataat  TA-rich tract