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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctctcctccctaattctcaccaattcttgtatctcatatcttcacgtgtttctgtttttttgcgattgtccttgttttctcttgtttaatttgtttcctctttgcagAGGCCACCCCGAAGACCATCATGAGAGTCATGGGTGTAAAAGGTCTCACTCTTTACCATCTCAAGAGCCATCTCCAG

Basic information

species Vitis vinifera
transcript Vv19s0085g00890.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S25_131V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacctctcctccctaattctcaccaattc--ttgtatctcatatcttcacgtgtttctgtttttttgcgattgtccttgttttctcttgtttaatttgtttcctctttgcagAGGCCACCCCGAAGACCATCATGAGAGTCATGGGTGTAAAAGGTCTCACTCTTTACCATCTCAAGAGCCATCTCCAG
              |  | || || || |   | |||     ||| |   ||||    |  | ||  |  ||      |   |  ||| ||     |||||  |  |   ||||||| || |||||  |  | |||||||||||||| || || ||||| |||||||||||| | ||||||||||| |||
------------gatgttgctgactaagttggtagtaaaatgtatgtcttcgtgggattagtattaggtcatcaaaactaactcgtct-gtcattgttgttcacaatggacagAGGCTACACCGAAATCTGTAATGAGAGTCATGGGAGTGAAGGGTCTTACTCTTTACCATTTGAAGAGCCATCTTCAG

upper sequence: Vv19s0085g00890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S47_90V6.1 (Physcomitrella patens), 3'ss of exon 2
gtacctctcctccctaattctcaccaattcttgtatctcatatcttcacgtgtttctgtttttttgcgattgtccttgttttctcttgtttaa---tttgtttcctctttgcagAGGCCACCCCGAAGACCATCATGAGAGTCATGGGTGTAAAAGGTCTCACTCTTTACCATCTCAAGAGCCATCTCCAG
               ||||| | |      |||||| | ||  | | |  | | | ||     |   |||        |    | ||  ||||    ||| |||     ||||||||| ||||| ||  |  ||||| | || |||||||| ||||||||||||||||| ||| | || ||||||||||||
--------------aaattccctcatcaatttgtatatgatgcccttatttctctttgcacactcttgataaagtcactcacatgttaattaaatacttgcttcaatgatgcagAGGCAACCCCAAAATCTGTCATGCGGGTGATGGGTGTCAAAGGTCTCACTCTTTATCATTTAAAAAGCCATCTCCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttttgcgattgtccttgttttctcttgtttaatttgtttcctctttgcagAGGCCACCCCGAAGACCATCATGAGAGTCATGGGTGTAAAAGGTCTCACTCTTTACCATCTCAAGAGCCATCTCCAG
                               gtttaat  putative branch site (score: 4)
                tccttgttttctcttg  CT-rich tract
                             ttgtttaatttgttt  TA-rich tract