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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgtacacacttgtctattttcaacttgttaacaaagaacaaaaaagtaagtccttagaatgtttttaaaaaatcctccagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G03920.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G03920.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S22_429V6.1 (Physcomitrella patens), 3'ss of exon 6
gtacgtgtacacacttgtctatt-----ttcaacttgttaacaaagaacaaaaaa-gtaagtccttagaatgtttttaaaaaatcctc----cagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG
||| ||    |    ||    ||      | ||    ||  | |       ||   ||   |  |  | | ||||  |   ||   ||    |||||||||| | ||||| || |||||||| |||||||||||||| || || |||||| |||| || || ||| | || ||| | |||
gtatgtagcaagttgtgctccttggcccctgaatgcatttcctagctttttaagttgttttttttccggaggtttgaacgtaagtttctctgcagGTGGTCATTGGGAGCAATCATGTACGAGATGCTGGTTGGGTACCCTCCATTTTACTCCGATGAACCTATGACAACATGTCGCAAG

upper sequence: AT1G03920.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 3'ss of exon 6
gtacgtgtacacacttgtctattttcaacttgttaacaaagaa---caaaaaagtaagtcctt---------agaatgtttttaaaaaa-----tcctccagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG
  |  |   |    |  | |||  || ||| | |    | |||   |   |   || ||  ||         ||||   ||  | | |      |||| |||||||||||||||||| || |||||||| ||||||||||| || || || || ||| | || || || ||| | |||||| | |||
--aattactcgagatactttatactcgactaggttgggaggaagccccgcatgttaggtttttgttcagcccagaacagttcaacatatgattttcctgcagGTGGTCACTAGGAGCAATCATGTACGAGATGCTGGTTGGTTACCCCCCTTTCTACTCTGATGAACCCATGACAACTTGTCGCAAG

upper sequence: AT1G03920.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ29515 (Selaginella moellendorffii), 3'ss of exon 6
gtacgtgtacacacttgtctattttcaacttgttaacaaagaacaaaaaagtaagtccttagaatgtttttaaaaaatcctccagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG
                           |   |  |     ||   ||||  |    |      ||   ||||      |    |||||||| || ||||||||||||||||| ||||| || |||||||| ||||| ||  ||||||| || |||||||||||  | |||
-------------------------gtaagaggcatttctgattgaaaatatctaccggcttgattgatttatggtgcc---tagGTGGTCTCTTGGAGCTATAATGTACGAGATGCTAGTCGGGTATCCGCCCTTCTATTCCGACGAACCGATGTCTACTTGCCGGAAG

upper sequence: AT1G03920.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ28086 (Selaginella moellendorffii), 3'ss of exon 6
gtacgtgtacacacttgtctattttcaacttgttaacaaagaacaaaaaagtaagtccttagaatgtttttaaaaaatcctccagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG
                           |   |  |     ||   ||||  |    |      ||   ||||      |    |||||||| || ||||||||||||||||| ||||| || |||||||| ||||| ||  ||||||| || |||||||||||  | |||
-------------------------gtaagaggcacttctgattgaaaatatctaccggcttgattgatttatggtgcc---tagGTGGTCTCTTGGAGCTATAATGTACGAGATGCTAGTCGGGTATCCGCCCTTCTATTCCGACGAACCGATGTCTACTTGCCGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaacaaagaacaaaaaagtaagtccttagaatgtttttaaaaaatcctccagGTGGTCACTAGGAGCTATAATGTACGAAATGCTGGTTGGGTATCCACCCTTTTACGCCGACGACCCAATGTCTACTTGTAGAAAG
 tgttaac  putative branch site (score: 2)
                                               tcctcc  putative PPT
                            ttagaatgtttttaaa  TA-rich tract