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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttttagcatttattgttacaacaataatttgtttatcaactgtggtgcgtttgtattgttaaatccatggcaacaacttaataacacagGTATGGAAGGCAGACATTACCTGGATTGATTAAAGATGGCATGAGTGCTCTTTCACGATATTATTTGAATAATTTTCATGACGGAGTGAGACAA

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G047894_T02 (Zea mays), 3'ss of exon 16
gtaactttttagcatttattgttacaacaataatttgtttatcaactgtggtgcgt----ttgtattgttaaatc-catggcaacaacttaa-taacacagGTATGGAAGGCAGACATTACCTGGATTGATTAAAGATGGCATGAGTGCTCTTTCACGATATTATTTGAATAATTTTCATGACGGAGTGAGACAA
       | ||||||||  ||   ||  |||   ||  | || ||||||| |  ||    ||   | | ||| |  ||||| ||| | | |  |||||||| ||||||||||||||||| |||||| | ||||||||||| ||||||||||||||| |||||||||||||||||||||||||||||||| | |||
---gtactctagcatttcctgcctcagtaattcattaataataaactgtgatatgtagtgttacttggctaacttacatgggaactattgaggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCTTTCAAGATATTATTTGAATAATTTTCATGACGGAGTGCGGCAA

upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GLYMA18G43270.1 (Glycine max), 3'ss of exon 10
gtaactttttagcatttattgttacaacaataatttgtttatcaactgtggtgcgtttgtattgttaaatccatggcaacaacttaataacacagGTATGGAAGGCAGACATTACCTGGATTGATTAAAGATGGCATGAGTGCTCTTTCACGATATTATTTGAATAATTTTCATGACGGAGTGAGACAA----
       | | | |||| | |||   | ||    |   ||  ||  |||    | | |||  |  |   |   ||| ||        |     || ||||| |  || ||| || || || |||||||||||||  ||||||| ||||| |||||||| |||||||| ||||| || ||  |  ||||     
------gtatggaatttttggttcttaaaagtcctatgttgcca--tgtttcccttctgtgataatgg-tttttggaaatt------tggtgtagATATGGGAAACAAACAATAACTAGAATGATTAAAGATGGGGTGAGTGCACTTTCCCGATATTACTTGAATAACTTTCAGGATGGGATTCGACAGGCAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaactgtggtgcgtttgtattgttaaatccatggcaacaacttaataacacagGTATGGAAGGCAGACATTACCTGGATTGATTAAAGATGGCATGAGTGCTCTTTCACGATATTATTTGAATAATTTTCATGACGGAGTGAGACAA
                                            taataac  putative branch site (score: 1)
               tttgtattgttaaat  TA-rich tract