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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactcaagattttcaaatccattctttcttaacatttggttatccattgattttcctttttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA

Basic information

species Vitis vinifera
transcript Vv05s0020g03080.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g04990.1 (Oryza sativa), 3'ss of exon 5
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactca-agattttcaaatccattctttcttaacatttggttatccattgattttccttttt---ttttttttaaatt-ttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                    || |  || | | |  |     |  | |  |  ||| || ||||    ||    |       | ||||  ||| | |||  || |   ||      ||     ||    |   |  ||||    |||||    ||   ||||||  || | |||  ||| | |||||  |  |  ||||  | |||||||| |||||||||||||||  ||| ||||||||||||||  | |||| |||||||||||| || ||  | ||||| |
------------------------------------gtgagtcattatgatctcaa--caagcaccgtccttctgatttt----aactactaacaggcagatcttgtcacacattgccataatgatatagcatttgtggtta--cacttacagattcctttttttaaacttgcattaaataattttctaaaactgaaccagGGTGCGCGCATTGGTTTGTATTTTATAAACAGACCTGAGTGGACCATAGTTGATCATGCCTGTGCGGCATATTCATATGTATCCGTGCCACTTTATGATA

upper sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g04980.1 (Oryza sativa), 3'ss of exon 5
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactca-agattttcaaatccattctttcttaacatttggttatccattgattttcctttttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                        || | || ||||  |         |        | ||||| |||   ||   |     | ||||  ||| | ||   |||    ||    | |  |  |    |||   | |   |||  |||||   ||  |  ||||| |||||  ||| | |||||  | ||  ||||  | |||||||| ||||||||||||||| |||| ||||||||||||||  | |||| |||||  || || || ||  | |||||||
---------------------------------------gtg-agtcataatggtcgcaacaagtaccgtccttctttttttaactagta--gcaggcagatcttgtcacacatggacaatgatataacatttgtatttacacttagagagtcccttttttttttaacttgctttattttttttaactctgaaccagGGTGCATGCATTGGTTTGTATTTTATAAACAGACCTGAGTGGATCATAGTTGATCATGCCTGTGCAGCATATTCATTCGTGTCTGTGCCACTTTATGACA

upper sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G28200.1 (Glycine max), 3'ss of exon 5
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactcaagattttcaaatccattctttcttaacatttggttatccattgattttccttt--ttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                                                                                     |  |  | ||||| | |  | |||   |  | |  ||||  || |  |   | | || | |     ||  |||| || ||||||  |        |||| ||  || ||||  | |||||||| |||||||||||||||||||||||||||||||| ||||||||||  |||| ||||||||| ||| | ||||| |
----------------------------------------------------------------------------------------------------gtgaatgctagattgt-agtttcatggctgatcattatttcattttttacaaagtatcatgtaaccattggtttacatgttctttttt--------agGGCTCCAGTATTGGGTTGTATTTTATTAACAGACCTGAGTGGCTCATTGTTGATCATGCTTGCTCTGCATACTCATTTGTATCAGTGCCTCTGTATGATA

upper sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 5
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactcaagattttcaaatccattctttcttaacatttggttatccattgattttccttt--ttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                                                                                     |  |  | ||||| | |  | |||  ||  |||  ||||  || |  |   | | || | |     ||  |||| ||  || ||  |        |||| ||  || ||||  | |||||||| |||||||||||||||||||||||||||||||| |||||| |||  |||| ||||||||| ||| | ||||| |
----------------------------------------------------------------------------------------------------gtgaatgctagattgt-agtttcatggttgattattattttattttttacaaagtatcatgtaaccattggtttacatgctcattttt--------agGGCTCCAGTATTGGGTTGTATTTTATTAACAGACCTGAGTGGCTCATTGTTGATCATGCTTGCTCTTCATACTCATTTGTATCAGTGCCTCTGTATGATA

upper sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactcaagattttcaaatccattctttcttaacatttggttatccattgattttcctttttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                                                                                             | ||| |   || | | || || |  |   || ||     || | ||| |   |    |    || | |   ||  |  | || |||||||||| ||||||  | || || |||||  | || ||||||||||||||||||||||| || ||| | | ||| ||||| || |||||||| ||||| |
-----------------------------------------------------------------------------------------------------------gtaaattattggattcttactctccttcc---tgattgatttttaagtttgcagctagactc---aagtctctgtttttcttctaccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatccattgattttcctttttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA
                                      ctttaat  putative branch site (score: 4)
       attgattttccttttt  TA-rich tract