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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtctgaactgttctaaatgtgtcacgtattgctttcaggttctctttccagatcacaatttaattatttaattttttgtttatttttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG

Basic information

species Zea mays
transcript GRMZM2G135461_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G135461_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 3'ss of exon 1
-------gtctgaactgttctaaatg--tgtcacgtattgctttcaggttctctttccagatcacaatttaattatttaattttttgtttatttttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
          |   |  |   |||    ||| | |  |   |||     ||| | |  | | ||||| | | | |||| || |||  ||| ||  ||       | |||||  |||| |||| || |||  |||| || || |||||||||||||| |||||||| |||||  | || || || ||||| ||||||||||| ||||||
ctaaagtacatatgcaatcagaaacaattgttatgcttcagttttg---tctttctttataacacaagtaactcatttgatgtttcctttcttcattc------tgaagATCTTAGGGGTTGAGAGGACAGCTTCACAGCAGGAAATAAAGAAGGCTTATCACAAGTTGGCCTTACGTCTTCATCCAGACAAGAATCCTGGAGATGAG

upper sequence: GRMZM2G135461_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 1
--------------------------gtctgaactgttctaaatgtgtcacgtattgct-ttcaggttctctttccagatcacaatttaattatttaatt-ttttgtttat---ttttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG-
                           |  |   |  | | |   ||     | |  || ||||  |||  ||  |   |    | |    ||| | ||   |||||||     |  || |    ||  || |||| || || | ||  ||  | ||||| || |||||||||||||||||  |||| |||||  |||| || ||||| |||||||| ||||| |||||  
gtaccctaaaaaattcatgctttttctttcgctttcctttgataatggattatttcactattcaaattcaattcgcgtgttgttactgtgatatattatgactttgtttgacggtggttgagtggttgtagGTTCTTGGCGTGGAGAGAACGGCGTCTCAGCAGGAAATAAAGAAGGCGTACTACAAGTTGGCGTTGCGGCTTCACCCCGATAAGAACCCTGGTGATGATG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccagatcacaatttaattatttaattttttgtttatttttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
                    atttaat  putative branch site (score: 4)
                          ttttttgtttattttt  CT-rich tract
           aatttaattatttaat  TA-rich tract