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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcatgtcaaaatttaacaccatcatctattaaaagccggatggagtattattattttgtcaacttaaataataaatttttaactgtggttataaacagTAATAATGCTGGAATCATGACAAGGAACTGCACACGCTCCATTGACGGCCTGGAATTGCAATTTGCAACAAATCACATCG

Basic information

species Oryza sativa
transcript LOC_Os10g40020.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40020.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G128577_T01 (Zea mays), 3'ss of exon 2
tgtcatgtcaaaatttaacaccatcatctattaaaagccggatggagtattatt---attttgtcaacttaaataataaatttttaact----gtggttataaacagTAATAATGCTGGAATCATGACAAGGAACTGCACACGCTCCATTGACGGCCTGGAATTGCAATTTGCAACAAATCACATCG--------------------
         || | |||      | ||     |||       |  |  |        ||||     | || |||        ||| |||    ||  || |   ||| || || || ||| | |||||||||||||||||||| |||   ||||| |||||  |||| |||||||||||||||||||                    
-------aaaagacttagtttttttattagccaaatatttattaaaacacagcccggatttacagcatttgaatgtgtttggtttgactcgacgttcttttcggcagCAACAACGCCGGAGTGATGACAAGGAACTGCACACGTTCCTGCGACGGTCTGGAGCTGCATTTTGCAACAAATCACATCGGTGTGTGTCATTAGCCCAAA

upper sequence: LOC_Os10g40020.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G464885_T01 (Zea mays), 3'ss of exon 2
-----------------tgtcatgtcaaaat-ttaacaccatcatctattaaaagccggatggagtattattattttgtcaacttaaataataaatttttaactgtggttataaacagTAATAATGCTGGAATCATGACAAGGAACTGCACACGCTCCATTGACGGCCTGGAATTGCAATTTGCAACAAATCACATCG
                 |     |||       |   | ||  | || | ||||||| |    |  || ||  |  | |    ||   |  |  | ||     |||  || |  |||| || ||||||||| | |||||||||| ||||||||| |||   |||||||||||| |||| || || ||||||||||| |
gtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaa-atcatagtagtatgtgtttggctggttgactt---ggtgttcttttcgacagCAACAATGCTGGAGTGATGACAAGGAGCTGCACACGTTCCTGCGACGGCCTGGAACTGCATTTCGCGACAAATCACATTG

upper sequence: LOC_Os10g40020.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G128577_T02 (Zea mays), 3'ss of exon 2
tgtcatgtcaaaatttaacaccatcatctattaaaagccggatggagtattatt---attttgtcaacttaaataataaatttttaact----gtggttataaacagTAATAATGCTGGAATCATGACAAGGAACTGCACACGCTCCATTGACGGCCTGGAATTGCAATTTGCAACAAATCACATCG
         || | |||      | ||     |||       |  |  |        ||||     | || |||        ||| |||    ||  || |   ||| || || || ||| | |||||||||||||||||||| |||   ||||| |||||  |||| |||||||||||||||||||
-------aaaagacttagtttttttattagccaaatatttattaaaacacagcccggatttacagcatttgaatgtgtttggtttgactcgacgttcttttcggcagCAACAACGCCGGAGTGATGACAAGGAACTGCACACGTTCCTGCGACGGTCTGGAGCTGCATTTTGCAACAAATCACATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattattattttgtcaacttaaataataaatttttaactgtggttataaacagTAATAATGCTGGAATCATGACAAGGAACTGCACACGCTCCATTGACGGCCTGGAATTGCAATTTGCAACAAATCACATCG
                                 ttttaac  putative branch site (score: 2)
     tattattttgtcaact  TA-rich tract