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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgttaatattttgttctgttgcaaactttacacctcattgaactataacatctcactgatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG

Basic information

species Arabidopsis thaliana
transcript AT5G06120.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06120.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os03g42050.1 (Oryza sativa), 3'ss of exon 7
------atttgttaatattttgttctgttgcaaactttacacctcattgaactataacatctcactgatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
      | ||||    | || | ||  | |||      | |  | | ||  | ||| | |  |     |  |  |||         |  | ||  | |     ||||||||||||||||||  |||||||| | ||||||||| || ||||| ||||| |   ||||||  |||
ttagatacttgtctcaaattcgctccat-gcaggaacaaaaa-taaatgctccatatctttacgtaatttattcttctgatgtgtgatctgctcatcta----cagGTCTTGCTGATCATGGAAATTACCATGAGTTCTGCCGCCTTCTTGGACGTTTCAAAGTGAATTTCCAG

upper sequence: AT5G06120.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G00520.1 (Glycine max), 3'ss of exon 1
---atttgttaatattttgttctgttgcaaactttacacctcattgaactataacatctcact-gatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
   |  | || |     | ||   |     | ||| ||  ||||||   | |    |||   | | || ||  |    ||    || |   || |    | |||||||||| ||||||||||||||||| | ||| || ||||| ||||| || || ||  |||||||||||
tttacatttttaagcactatttaatcctttatttt-catttcattgtttt-tgttgtcttgtttggtcatgcatttataatttcaactgtattgg--aaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG

upper sequence: AT5G06120.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G00430.1 (Glycine max), 3'ss of exon 7
---atttgttaatattttgttctgttgcaaactttacacctcattgaactataacatctcact-gatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
   |  | ||||     | ||   ||    | ||| ||  || |||   | |    |||   | | || ||  |    ||    || |   ||   |  | |||||||||| ||||||||||||||||| | ||| || ||||| ||||| || || ||  |||||||||||
tttacattttaaagcactatttaattctttatttt-catttcgttgtttt-tgttgtcttgtttggtcatgcatttataatttcaactgtattg--taaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG

upper sequence: AT5G06120.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv13s0067g01920.t01 (Vitis vinifera), 3'ss of exon 9
atttgttaatattttgttctgttgcaaactttacacctcatt----gaactataac-atctcactgatcttggttcgtcaacacaaattacttttgttgg--atcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
      | ||||   |     |   |  ||||  || |||||    ||| | ||   |  |||     |||   |  |  |       || ||    |||  ||||||||||| |||||||||||||||||| |  || || ||||| ||||| ||||| ||  | |||||||||
------ttatatgaagcatcataaaatgcttt-tacatcattagcagaagtttatttaaatcaaatggcttaaattattgagttgctatatttggactgggaatcagGTCTTGTTGATCATGATAATTACCATGAATTTTGTCGTCTCCTTGGACGTTTCAGAGTAAATTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctataacatctcactgatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
           cactgat  putative branch site (score: 3)
                                        cttttgtt  putative PPT
                                  aaattacttttgtt  TA-rich tract