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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaaatccttgtctcatttagctcttgtgatctcttaccgttgtttctcaggtgttaatggttaagagattcctcctgcagGTGTTAAGTTCTATGAGACCAATGAGAAGGAGCTTCTGTTTGAACCATCAATCAAATGGGCAGGCAATCCCAACATTGTTTTGGTGCTAAAGGTTCTGTC

Basic information

species Arabidopsis thaliana
transcript AT5G04220.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04220.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0019g04450.t01 (Vitis vinifera), 3'ss of exon 4
-gcaaatccttgtctcatt-tagctcttgtg----atctcttaccgttgtttctcaggtgt---taatggttaaga--gattcctcct--------gcagGTGTTAAGTTCTATGAGACCAATGAGAAGGAGCTTCTGTTTGAACCATCAATCAAATGGGCAGGCAATCCCAACATTGTTTTGGTGCTAAAGGTTCTGTC
  ||| | |     | ||  |||   || ||    || ||| |  |  | | ||   || |   | ||  || ||   | || |   |        |||||| ||||| | |||||||| |||||||||||  |     | |||||| | ||||||||||| ||||||||||||||  |||||||||||||     || |
ctcaatttccaacataatagtagagattatgtttgatttctcagtgaggctgctttagtttgtttgatttttcagtttggtttcctttacaaattggcagGTATTAAGGTGTATGAGACTAATGAGAAGGAATTAGCCATGGAACCAGCGATCAAATGGGCTGGCAATCCCAACATAATTTTGGTGCTAAAATGGTTGCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatctcttaccgttgtttctcaggtgttaatggttaagagattcctcctgcagGTGTTAAGTTCTATGAGACCAATGAGAAGGAGCTTCTGTTTGAACCATCAATCAAATGGGCAGGCAATCCCAACATTGTTTTGGTGCTAAAGGTTCTGTC
                          tgttaat  putative branch site (score: 3)
                                           ttcctcctgc  putative PPT
                          tgttaat  TA-rich tract