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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC

Basic information

species Vitis vinifera
transcript Vv13s0067g01120.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G074401_T01 (Zea mays), 3'ss of exon 6
gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC
                                  ||||||       | ||   |    || |        |    || | ||  |    ||   ||  |    | ||| | | |     |    |||   ||    ||||||||||||||||| | ||||| || || || || ||||| ||||||||| | || || || ||||||||||| || || |||||||| || ||||| |
----------------------------------gattatcgactgctgttaatttatgcatattct----atcctgatttcttctttggaagatagattggctattgataccacattgaccttttctacattat-tagGAATGGAGTTATCTGCGTGGAGGACTGACGACGCTCGACCGGGACTATGGACTGATTAACAATATCCACCATGACATCGGAACTCATGTCATCCATCACC

upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G129209_T01 (Zea mays), 3'ss of exon 3
gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC
                                                       | |  | | ||  |||  | ||  |||  ||  |   |||||    |||||||        |||  |||  ||  |      |||||||||  |||||  | || || || ||||| || ||||| ||||| ||    ||||| |||||||||||||| |||||||||||||| || || ||||
-------------------------------------------------------gtagtatatagctaaatcacagc-tgc--atgcaggtttcag----ttaactgttc-tataactaatggacctact------agGAATGGACCTATCTTCGGGGTGGCCTGACAACGCTCGACCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGGACTCATGTCATCCACCATC

upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G05580.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC
                           |  |||  | | || ||||   ||   || ||   ||       | ||| | || |  |     | |||             |||| |  | | |   |        |||||||||||||||| ||||||||||||||||||||  | || |||||||| |||   ||||||||||||||||| |||||||| |||||||| ||||||||||
---------------------------gtatgcaaaatctacttcaccttt---tgtaatcgagttacctgagagacactgttgttgtgagaatcac------------aaacgcttcatgtactttccccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC

upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G11170.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC
                               |   | || ||   |||||  ||| | ||         |  |      |  |  |    |  | |       |||||        |  ||  | |         |||||| |||||||| ||||||||||| || |||||  | || |||||||| ||| | |||||||||||||| ||||||||||| |||||||| ||||||||||
-------------------------------gtaaaatacat---attctctgcttccactgttctttgactacatcgctctttcttttaaggttaaagcc--aactggtgtgtaaatctcatgattctcccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGATTGATCAATAACATCCATCATGATATTGGAACTCATGTGATACATCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC
               ttttaac  putative branch site (score: 2)
                                        ctctgtttttc  putative PPT
              attttaactgaaaa  TA-rich tract