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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttgtttccaagttttcttcaaactgctgcaaattctagcaacactcatataattaaacctttattttctaacccaactctagaggctaggctttgccagtttgatgcatgcacacccatagccacaaacagataattgttattaagaatattaaatgactgacaaaagactaagatctgcttcatctttcagGTAGATTATTCTGGATTTATGACGATAAATCCTCAAAGATTTGGACAGAAATATGTGGGAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G54260.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 7
gtaacttgtttccaagttttcttcaaactgctgcaaattctagcaacactcatataattaaacctttattttctaacccaactctagaggctaggctttgccagtttgatgcatgcacacccatagccacaaacagataattgttattaagaatattaaatga---ctgacaaaagactaagatctgcttcat--ctttcagGTAGATTATTCTGGATTTATGACGATAAATCCTCAAAGATTTGGACAGAAATATGTGGGAAAG
                                                                                                      | ||  || || |   |         |   |||  ||||||   |  | | || |  |||    ||  ||      |||  ||| |||  |   || ||||||||||| |||||||||||||| |||||||||||||||||||| ||||||||||| || |||
-----------------------------------------------------------------------------------------------------aacttctattca-gtctattggccataatggacatctaattgccttggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG

upper sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 12
gtaacttgtttccaagttttcttcaaactgctgcaaattctagcaacactcatataattaaacctttattttctaacccaactctagaggctaggctttgccagtttgatgcatgcacacccatagccacaaacagataattgttattaagaatattaaatgactgacaaaagactaaga---tctgcttcatctttcagGTAGATTATTCTGGATTTATGACGATAAATCCTCAAAGATTTGGACAGAAATATGTGGGAAAG
                                                                                                  ||     |  | | |||||  |   ||   ||||    ||  | |    |   |  |||||||     |    |  || ||    |||  || || |  ||||||||||| |||||||||||||| |||||||||||||| ||||| || || |||||||| |||
--------------------------------------------------------------------------------------------------tgatgtgtaaagggatgcaagcttttaagaacaatggcattgtggagtgtgtaaccattaaata--caattttatccttagcctttcttttttatttaacagGTAGATTACTCTGGATTTATGACAATAAATCCTCAAAGGTTTGGGCAAAAGTATGTGGGCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattaagaatattaaatgactgacaaaagactaagatctgcttcatctttcagGTAGATTATTCTGGATTTATGACGATAAATCCTCAAAGATTTGGACAGAAATATGTGGGAAAG
                   gactgac  putative branch site (score: 2)
                                      tctgcttcatctttc  putative PPT
     taagaatattaaatga  TA-rich tract