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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaaaaatgttacttttgtaacagaaactttgataaacagtttttcttatgtttgacatggttatggatgttttcttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC

Basic information

species Arabidopsis thaliana
transcript AT1G30600.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30600.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G21920.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------gtaactaaaaatgttacttttgtaacagaaactttgataaacagtttttcttatgtttgacatggttatggatgttttcttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
                                                         || |    | |||| | | |  | |   ||||||  |  ||   |||| ||| |  |    | |  ||    | |  | |||||||||| ||||| ||||| ||||||||||||| ||| ||||| || || |||||||||||||||||| | || || ||||| |||||||| || ||||| ||| 
gtacattttcaatttttggacaagtgatacattgttgtgcaaataatttacatgtcagtgatatgatatgtcagtctatttatctaaacttgcactaa--attttacttttcct--gtaagactaatagtatgatgttttgcagGCAGCTCAGGATGGGGTTGACATAATAAGCTTGTCAATTACTCCTAATAGACGTCCTCCTGGTGTTGCAACTTTCTTCAACCCAATAGACATGGCTTTGA

upper sequence: AT1G30600.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G09850.1 (Glycine max), 3'ss of exon 5
------gtaactaaaaatgttacttttgtaacagaaactttgataaacagtttttcttatgtttgacatggttatg-----gatgtttt--cttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
      |||| | | | || |  |||     ||    |||    | | | ||      |  ||||   ||  | |       ||  | |    ||||||||| ||||| ||||| ||||||||||||| ||| || || || || |||||||||||||||||| | || || ||||| |||||||| || ||||| ||||
agagttgtaagtgatagtggtgatttccatgcatgtccttcacaataaaattgcatccaattttgctttgcctgtaacactaatagtgtgatgtttgcagGCAGCTCAGGATGGGGTTGACATAATAAGCTTGTCTATTACTCCCAATAGACGTCCTCCTGGTGTTGCAACCTTCTTCAACCCAATAGACATGGCTTTGC

upper sequence: AT1G30600.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G30460.1 (Glycine max), 3'ss of exon 5
gtaactaaaaatgttacttttgtaacagaaac--tttgataaacagtttttcttatgtt-------tgacatgg-ttatgg-atgttt--tcttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
|| |||  |||   ||   |  |  || || |  |||  ||||   | |  |  || ||       || ||||| |||| | ||  |   |  ||| ||||| ||||| ||||| ||||||||||||  ||| |||||||| || ||||| |||||| |||| ||||| || ||||| || ||||| |||||||||||||
gttactgtaaagtgtaaagtactttcaaaatctgtttactaaattatatccccaattttacatctatggcatggcttatagtataatcaattgtttacagGCAGCTCAGGATGGGGTTGACATAATATGCTTGTCAATCACTCCTAATAGGCGTCCTTCTGGCATCGCAACTTTCTTCAATCCAATAGATATGGCATTGC

upper sequence: AT1G30600.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G13590.1 (Glycine max), 3'ss of exon 5
-----gtaactaaaaatgttacttttgtaac------agaaactttgataaacagtttttcttatgtttgacatgg-ttatgg-atgttt--tcttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
      |   |  |  | || ||||   ||       |  || ||  ||  ||| |||| |  || |  |  |||| |||| | ||  |   |  ||| ||||| ||||| ||| | ||||||||||||  ||| |||||||| || ||||| |||||| ||||||| || || ||||| || ||||| |||||||||||||
atactttccttgcatgtcttcctttcaaaatctgcttactaaattgtatccacaattttac--atttacggtatggcttatagtataatcaattgtttacagGCAGCTCAGGATAGGGTTGACATAATATGCTTGTCAATCACTCCTAATAGGCGTCCTTCTGGTATTGCAACTTTCTTCAATCCAATAGATATGGCATTGC

upper sequence: AT1G30600.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 5
-------gtaactaaaaatgttacttttgtaacagaaactttgataaacagtttttcttatgtttgacatggttatggatgttttcttttgca------gGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
        |  |||    ||||| ||         | |     | | ||  ||    |     |||  || | | | ||| ||  ||||||||      ||| ||||| ||||||||||||||| ||| ||| |||||||| || || || ||||| ||||| || || || || ||||| || || |||||||| ||||
cctcaaccttgctatttgtgttatttgctgccttcatatggccagacaccattcacatgggcattgtaattgattttgatcttcccttttgcattcacagGCAGCTCAGGATGGAGTTGACATAGTAAGCTTGTCAATCACTCCCAACAGGCGTCCCCCTGGAATTGCAACTTTTTTTAATCCCATAGATATGGCCTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgataaacagtttttcttatgtttgacatggttatggatgttttcttttgcagGCGGCTCAAGATGGAGTTGACATAATAAACTTATCAATCACACCAAATAGACGTCCTCCTGGTATCGCTACGTTCTTTAACCCAATCGATATGGCATTGC
                      gtttgac  putative branch site (score: 4)
                                        tgttttctttt  putative PPT
            tttttcttatgttt  TA-rich tract