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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcttagcttatgcttattttttaaaggctttttgctttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG

Basic information

species Arabidopsis thaliana
transcript AT1G09160.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 3
gtcttagcttatgcttattttttaaaggctttttgc-tttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
               ||  ||   |    | || || |  |||||   ||| | ||      || |    ||    ||   || ||| | |||||||||||||||||||||| |  || |||||| |  ||||||| |||||| |||||||||| |||||||| || || || |||||||| || || |||||
--------------gtacattcagagttttcttggcatccctattggagttctccacatgcacttttcttgaccttata-attttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG

upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 3
gtcttagcttatgcttattttttaaaggctttttgc-tttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
               ||  ||   |    | ||||  |  |||||   ||| | || |    || |  | |||    |   || ||| | ||||||||||||| |||||||| |  || |||||| | |||||| | |||||| |||||||||| |||||||| || || || |||||||| || || |||||
--------------gtacattcagagttttctttgtatccctattggagttctccacgtgcacttttcctgatctt-ttaattttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG

upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G41810.2 (Glycine max), 3'ss of exon 3
gtcttagcttatgcttattttttaaaggctttttgctttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
               ||  |   |||   | ||||||| |    |   | ||    |  ||||  | | |||    |   ||     | ||||||||||||| |||||||| |  || |||||| |  ||||||| |||||||| |||||||| ||||| || || || ||||||||||| || || || ||
--------------gtacatacaaaatattctttgcttgcctcacagatcttctgtgtgtgcttaagctgatgtt-ttaatttcatctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTTTGGTTGATGGATGGACTATCACTGTTGCATCTGTGGGAGATTCCCGCTGCATATTAGATACTCAGGG

upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G39260.1 (Glycine max), 3'ss of exon 3
gtcttagcttatgcttattttttaaaggctttttgctttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
               ||      |||   | ||||||| |       |  ||    ||||| |  | | |||    ||  ||     | ||||||||||||| |||||||| |  || |||||| |  ||||||| |||||| | |||||||| |||||||| || || ||||||||||  || || || ||
--------------gtacaaacaaaatattatttgcttgcc---tcagacttctgtgcatgattaagctgatgttttc-atttcatatgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTTTGGTTGATGGATGGACTGTCACTGTTGCATCTGTTGGGGATTCCCGCTGCATATCAGATACTCAGGG

upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S29_323V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------------------------gtcttagcttatgcttattttttaaaggctttt----tgctt---tctattcttgtttttcaagcatgctctaaccgataagatctgt-----tgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
                                                       ||  |   || |  |||||   |   | ||| |    || ||   | | | ||||     ||   ||    ||         ||||||     |||| |  ||| | |||| ||||||||||| || ||||||||  | || ||||||||||| || ||||| |||| |||||| ||||| || ||  |  | ||| | |||||
gtatttcgaatgtaataaccttgcatttcatcatcttttgtactacatttgttccgtggtcttttttatttattcagtgttgccttgtactgtgattgaatttctccttgaaccgcagaaatagagtattaatgtgcatctgtgttgatgtgttatcagAGCAAACGTCAGGAACAACTGTTACTTTTGTAGTGATAGATGGTTGGACCATCACTGTAGCTTGTGTTGGAGACTCACGTTGTGTCCTAGACTCACAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG
                        ctctaac  putative branch site (score: 2)
        ttgttttt  TA-rich tract