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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