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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgatgtagctgcctcaaattcattatagcactccattcttgccattatacttccttcgatgactcatacaacatctaactattctcagGTTCAAATTCTGAATTTGATTTCTACTCTTATTGGCCATGTTAGCGAAGTCATTCCGTACGCACAAAAGTTGGTGCAATTCTTCCAGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G08960.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 15
gtacttgatgta-gctgcctcaaattcattatagcactccattcttgc-cattatac--ttccttcgatgactcatacaacatct--aactatt--ctcagGTTCAAATTCTGAATTTGATTTCTACTCTTATTGGCCATGTTAGCGAAGTCATTCCGTACGCACAAAAGTTGGTGCAATTCTTCCAGAAG
  |    |  ||   ||  | || |  |   |   |||  ||| | |  ||  ||    | |  |   |||    | || | |||  || ||||   ||||||||| ||| |||||||||| ||||  |||||||| |||||||| ||||| ||||| |  ||| | ||||||||||| || || ||||||
-gagcaaacatatattgtgtaaattataacctgaaactgaattttcgttcaacatttgatcctattagtgaactgttcatcttctttaaatatttcttcagGTTCAGATTTTGAATTTGATCTCTATCCTTATTGGACATGTTAGTGAAGTTATTCCATTTGCAAACAAGTTGGTGCAGTTTTTTCAGAAG

upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA07G18530.1 (Glycine max), 3'ss of exon 13
gtacttgatgta-gctgcctcaaattcattatagcactccattcttgc-cattatac--ttccttcgatgactcatacaacatct--aactatt--ctcagGTTCAAATTCTGAATTTGATTTCTACTCTTATTGGCCATGTTAGCGAAGTCATTCCGTACGCACAAAAGTTGGTGCAATTCTTCCAGAAG
  |    |  ||   ||  | || |  |   |   |||  ||| | |  ||  ||    | |  |   |||    | || | |||  || ||||   ||||||||| ||| |||||||||| ||||  ||||| || |||||||| ||||| ||||| |  ||| | |||||||||||||| || ||||||
-gagcaaacatatattgtgtaaattataacctgaaactgaattttcgttcaacatttgatcctattagtgaactgttcatcttctttaaatatttcttcagGTTCAGATTTTGAATTTGATCTCTATCCTTATCGGACATGTTAGTGAAGTTATTCCATTTGCAAACAAGTTGGTGCAATTTTTTCAGAAG

upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 13
gtacttgatgtagctgcctcaaattcattatagcactccattcttgccattatacttccttcgatga-------ctcatacaacatctaactatt--ctcagGTTCAAATTCTGAATTTGATTTCTACTCTTATTGGCCATGTTAGCGAAGTCATTCCGTACGCACAAAAGTTGGTGCAATTCTTCCAGAAG
  |||  || |    |    | |||   |       |   |    ||   | |  |||  |   |||        ||||      | ||| ||||   ||||||||| ||| |||||||||| ||||  || || || |||||||| ||||| ||||| |  ||| | |||||||||||||| || ||||||
aaactgaattt--tcgttcaacatttgatcctattttttttatcggcacatttgattctattagtgaactgttgttcattttgtttttaaatattacttcagGTTCAGATTTTGAATTTGATCTCTATCCTCATCGGACATGTTAGTGAAGTTATTCCATTTGCAAACAAGTTGGTGCAATTTTTTCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcttgccattatacttccttcgatgactcatacaacatctaactattctcagGTTCAAATTCTGAATTTGATTTCTACTCTTATTGGCCATGTTAGCGAAGTCATTCCGTACGCACAAAAGTTGGTGCAATTCTTCCAGAAG
                                       atctaac  putative branch site (score: 2)
                                             ctattctc  CT-rich tract
          attatactt  TA-rich tract