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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgacctttatttgcttatctttgatatttgtgttttaaactttttatcgaggttttgagttatatatgtaacagAGTAAAGAAGATGACAAAAATGACAGAGAAAGTGGCGAATGGTGTGCTCTCTGGTGTTGTTAAAGTTTCTGGATTCTTCTCGAGTTCAGTGATAAATAGC

Basic information

species Arabidopsis thaliana
transcript AT4G35985.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35985.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA11G08300.1 (Glycine max), 3'ss of exon 1
-------------------gtacgacctttatttgcttatctttgatatttgtgttttaaacttttta---tcgaggttttgagt-tatatatgtaacagAGTAAAGAAGATGACAAAAATGACAGAGAAAGTGGCGAATGGTGTGCTCTCTGGTGTTGTTAAAGTTTCTGGATTCTTCTCGAGTTCAGTGATAAATAGC
                    ||     |||||||| | |  |    |  || | |  |  ||  |||    |   |||||    | ||| | | | | || || || |   | || ||||||||||||||||| || |||||| | ||||| ||||| || ||||| |||||||| ||| | ||||||||||||||    
ctactttaagttgttatagttatcttttttatttgatcagttcgagtgattatttaattgacaatttggacttttggtttgatatgtatctcttttatagGGTTAAAAGAGTTACTAAAATGACAGAGAAAGTAGCTAATGGTTTCCTCTCAGGTGTCGTGAAAGTGTCTGGATTTTTCACCAGTTCAGTGATAAACTCA

upper sequence: AT4G35985.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G36960.1 (Glycine max), 3'ss of exon 1
-------------------gtacgacctttatttgcttatctttgatatttgtgttttaaacttttta---tcgaggttttgagt-tatatatgtaacagAGTAAAGAAGATGACAAAAATGACAGAGAAAGTGGCGAATGGTGTGCTCTCTGGTGTTGTTAAAGTTTCTGGATTCTTCTCGAGTTCAGTGATAAATAGC
                    ||     |||||||| | |  |       || | |  |  ||  |||    |   |||||    | ||| | | | | || || ||||   | || |||||||| |||||||| || |||||| | |||||||| || || ||||| |||||||| ||| | ||||||||||||||    
ctactttaagttgctatagctatcttttttatttgatcagttcgagcgattatttaattgacaatttggacttttggtttgatatgtatctcttttatagGGTTAAGAGAGTTACTAAAATGACTGAGAAAGTAGCAAATGGTTTTCTCTCTGGGGTCGTGAAAGTGTCTGGATTTTTCACCAGTTCAGTGATAAACTCA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatatttgtgttttaaactttttatcgaggttttgagttatatatgtaacagAGTAAAGAAGATGACAAAAATGACAGAGAAAGTGGCGAATGGTGTGCTCTCTGGTGTTGTTAAAGTTTCTGGATTCTTCTCGAGTTCAGTGATAAATAGC
 ctttgat  putative branch site (score: 5)
     tatttgtgttttaaac  TA-rich tract