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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaccatgcattgtatctcaagggtttgtatttccaatttatattgtttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA

Basic information

species Arabidopsis thaliana
transcript AT5G22770.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------------------gaaccatgcattgtatctcaag--ggtttgtatttccaatttatattgt-ttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA
                                                                                               | | |||  |  |  ||    |||  ||  | |    | |   | |  ||   |  | |  || |      |  | |  ||  |||  |||| | |||||||| |||||||| |||||  | ||||| ||||| || ||||||||| | | |||||| |||||||||||||| || ||||| |||||||| ||||| |
gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagt----aattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA

upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 2
-gaaccatgcattgtatctcaag--ggtttgtatttccaatttatattgtttc-atgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA
      | |  ||  |  |  ||    |||  || || |    | |   | || ||   |  | |  ||        |  | |  ||  |||  |||| | |||||||| |||||||| |||||  | ||||| ||||| || ||||||||| | | |||||| |||||||||||||| || ||||| |||||||| ||||| |
ctggtgaagtgtttcagtttcagttcatttacatgtctagcagagaaaatatctatagactgtgaagaag----gaattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA

upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 2
gaaccatgcattgtatctcaagggtttgtatttccaatttat-attgtttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA
      |||| |  |   ||||  | |  | || ||    || |   ||   || | | | ||   |||       || | | | | ||   ||  | ||||| || |||||||| || || || || ||||||||||||||||||||||||| ||| ||||||||||| ||||| || ||||||||||| || ||||| |
-ttttgtgcagttcactgcaagtttattaactttcatcacattacaattggttggttcattacacttttattaactttcatcatattataattggctgcagGTGGGGTACATTGTAACGTCATGTTTACTCAATGAGAACCATGACTTTTTGAGGTTAGCAATAAATACTGTGCGCAATGATATTATTGGCCGAAATGAAA

upper sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S26_36V6.1 (Physcomitrella patens), 3'ss of exon 2
gaaccatgcattgtatctcaagggtttgtatttccaatttatatt-gtttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA
           | | | ||||   |   |||| |         |  ||  | |||  ||  |||  |   | ||  |  ||   ||  |  || | | |||||||||||||| || ||||||||| |||||||||||||||| || ||||||    |||  || || || || || || || || ||||||||||||||||
----------gtatgtatcaaatatcgatattccttgcaaccgtcagtgacttgcctctgcactgttacactgg-gtctaatgattggt--attaat-cagGTTGGCTACATCGTCACATCTTGCCTGCTCAATGAGAACCACGATTTTTTGCGACTGGTCATTAACACTGTCCGTAATGACATCATTGGTCGGAATGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA
              aactaat  putative branch site (score: 2)
            ttaactaattt  TA-rich tract