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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcctcgtgtgatggtctatagtcttgcctcttagaggaaattttcctctcttcatacaatttttttgtgtcagtataattgggaaagctcactgtactgtctgtctcttcccctttagttaattacttttttttttgcgttttatagGTCGAAAAGCTTGGGAAAGTTCCATTGATAAACTGTGCCAAAACCAGCATGTCCTCCAAACTGATATCTGGTGACAGCGACTTCTTTGCCAATTTG

Basic information

species Arabidopsis thaliana
transcript AT3G20050.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20050.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G12970.1 (Glycine max), 3'ss of exon 6
gttagtcctcgtgtgatggtctatagtcttgcctcttagaggaaattttcctctcttcatacaatttttttgtgtcagtataattgggaaagctcactgtactgtctgtctcttcccctttagttaattacttttttttttgcgttttatagGTCGAAAAGCTTGGGAAAGTTCCATTGATAAACTGTGCCAAAACCAGCATGTCCTCCAAACTGATATCTGGTGACAGCGACTTCTTTGCCAATTTG
                                                 | | |  ||||     | |  |||   | ||| | |        |  |   | ||| ||| |        ||| | |  |   ||||| | |    ||| ||||| |||||||| || || | | || | || ||||||||||| ||||| |||||||| ||  ||||| ||||||| || ||||||||||||| ||||
-------------------------------------------------catatgatcattgttatgtcatgtactaatattaattaatgcatttgcaa-attgt-tgtataccatgtgttactcagctggatttttctcttgacttt-tagGTTGAAAAGCTGGGAAAGGATTCACTAATTAACTGTGCCAAGACCAGTATGTCCTCAAAGTTGATAGCTGGTGATAGTGACTTCTTTGCCATTTTG

upper sequence: AT3G20050.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv15s0021g02230.t01 (Vitis vinifera), 3'ss of exon 6
gttagtcctcgtgtgatggtctatagtcttgcctcttagaggaaattttcctctcttcatacaatttttttgtgtcagtataattgggaaagctcactgtactgtctgtctcttcccctt-tagttaattacttttttttttgcgttttatagGTCGAAAAGCTTGGGAAAGTTCCATTGATAAACTGTGCCAAAACCAGCATGTCCTCCAAACTGATATCTGGTGACAGCGACTTCTTTGCCAATTTG
                                                      || |||    | | ||||| |   ||   |   |   | | |        | |||    |    |  | || |  |   | || | ||||  ||| ||||| ||||| ||||| |||| | || | ||||| |||||||| || ||||||||||| ||  ||||| |||||||||| |||||||| || | ||||
-----------------------------------------------------cctccatctcttatgtttgtatacatactgtaatgcgtggttaagccgtgatatgttcagtatagtgattgtaaccttactgttgtcttgctgtttctagGTTGAAAAACTTGGAAAAGATTCACTTATAAATTGTGCCAAGACAAGCATGTCCTCAAAGTTGATAGCTGGTGACAGTGACTTCTTCGCAAGTTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtactgtctgtctcttcccctttagttaattacttttttttttgcgttttatagGTCGAAAAGCTTGGGAAAGTTCCATTGATAAACTGTGCCAAAACCAGCATGTCCTCCAAACTGATATCTGGTGACAGCGACTTCTTTGCCAATTTG
                        agttaat  putative branch site (score: 4)
                              ttacttttttttttgc  CT-rich tract
                          ttaattactttttttt  TA-rich tract