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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgaacagaaacttcctagtcatttaaataactctagtggaccccacttacaagctaaaatgtgtgttttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA

Basic information

species Arabidopsis thaliana
transcript AT2G43230.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G43230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g67340.3 (Oryza sativa), 3'ss of exon 7
------------gta-atgaacagaaacttcctagtcat---tta-aataactctagtggaccccacttacaagctaaaatgtgtgttttgatggta----aatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCT---TCAACCGCTCTTGAGGTCAGCAA
             || ||| ||| ||  ||  ||  |||   | |  |||    |  |   |  | |||     | | | |      |       |      || |||||||||||||||||||| ||||| || ||||||||||| |||||| | ||||||||||||||||| || || ||| |   || || ||||   || | |||  
gtctcgatctctatacatgcacacaatatttatacacatgagtcatgatagtcatcctttccttctcttttcccccacatttctcactactgcactttctcgatgcagCTTGCAGCGGTTGCAGCATTGTGCGTACAATACGAAGCTGAGTTTCGCCCAAACATGAGCATTGTGGTGAAGGCTTTATCTCCACTGCTCACAAG-TAAGC--

upper sequence: AT2G43230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g62700.1 (Oryza sativa), 3'ss of exon 7
--------------------------------------------------gtaatga-acagaaacttccta-gtcattta-aataactctagtggaccccacttacaagctaaaatgtgtgttttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA
                                                     ||||  || |  |||  ||  ||||||  | || |  |  || |    | |  || | | |  |   || ||  |   ||  | |||||||| ||||| |||||  | ||||| ||||||||||||||||| ||||| |||||||||||||| || || || ||    || ||  |      |  | 
gtcagtctctcgtctctctctctctctcacacccacccacacatacacacactatgatgcacatgctttttacatcatttggagtagcagtcctgaaat--aatgtcatgttgatgtacttggttgcact-tatctgcagCTTGCTGCGGTGGCAGCTCTTTGTGTCCAATACGAAGCAGAGTTCAGGCCCAACATGAGCATTGTTGTCAAGGCGCTCTCTCCTCTGCTTCAACAAAAAC

upper sequence: AT2G43230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G071877_T01 (Zea mays), 3'ss of exon 7
--------------gtaatgaacagaaacttcctagtcatttaaataactctagtggaccccacttacaagctaaaatgtgtgt---tttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA
                   | |||      |   | | || |   ||  |  | | | ||    ||    | |  |||   | |   || ||   |   | |||||||| || || |||||  ||||||||||||||||||||||||| ||||| |||||||||||||| || || || |||   || ||| |      |  | 
gtcaacattttaccccctcgtacacgtctctgtgaatgatgtttttacattaatttggccatcttttattgatgtaatccctttcccttggactctccctgcagCTTGCTGCAGTGGCAGCACTGTGTGTGCAATACGAAGCAGAGTTCAGGCCCAACATGAGCATTGTTGTGAAGGCGCTTTCGCCTCTCCTTCAACAAAGAC

upper sequence: AT2G43230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G44210.1 (Glycine max), 3'ss of exon 8
--------------------------------------gta-atgaacagaaacttcctagtcatttaa-ataactctagtg-----gaccccacttacaagctaaaat-----gtgtgttttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA
                                      | | |||   | ||   || |     || || | |  ||| |||       | |||  |    | | | ||      ||  | ||| |||  | ||||||||||||| ||||| ||| |||| ||||| || ||||| |||||||||||||| ||||||||||| || ||||| || ||||| ||  ||| |||  |  
gtatatatttctctttctcactcctcttaattgcacaagcacatgtgaaaaagactcttgactcttgaataaagttctggtgcttggatctccatcttatggttgacattaacaatgcttattgttggcca-tacagCTTGCAGCTGTTGCGGCGCTGTGCGTGCAGTATGAAGCTGAGTTTAGGCCAAATATGAGCATTGTTGTTAAAGCACTCCAACCACTTCTGAAGTCTCCCG

upper sequence: AT2G43230.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G38980.1 (Glycine max), 3'ss of exon 8
------------------------------------gta-atgaacagaaacttcctagtcatttaaataactctagtg-----gaccccacttacaagctaaaat-----gtgtgttttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA
                                    | | |||   | | |||    | ||||  | | |  ||| |||       | ||| ||    | | | ||     |||  |  || ||     | ||||||| ||| ||||| ||  |||| ||||| || ||||| |||||||||||||| ||||||||||| || ||||| || ||||| ||  ||| |||  |  
gtatctatttctatttctcactcctcttaagtgcacgcacatgtgaaaagactattgactcatgaataaagttctggtgcttggatctccattttatggttgacattaaccgtgcctactgttgaccg-tgcagCTTGGAGCTGTTGCGGCACTGTGCGTGCAGTATGAAGCTGAGTTTAGGCCAAATATGAGCATTGTTGTTAAAGCACTCCAACCACTTCTGAAGTCTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactctagtggaccccacttacaagctaaaatgtgtgttttgatggtaaatacagCTTGCAGCGGTTGCAGCGTTGTGTGTGCAATACGAAGCAGAGTTTAGGCCAAACATGAGCATTGTAGTAAAAGCTCTTCAACCGCTCTTGAGGTCAGCAA
                          taaaatgt  TA-rich tract