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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatgtttttccttgtttctgcatttataaattcagaagttacaatgagttaccaatcatcagttcattacagccaatggaaagctacctgaatgcattgaaataacaatggttttgtgcaactgtgcattttccaattgttctgttcagAATTAAGGAGAGAAAGGAATCAGTGACAGTACTCTTATGTGGGACTAGCGGATGCGGCAAATCTACGCTATCATCTTTGTTGGTATGTTTATCACTTACG

Basic information

species Oryza sativa
transcript LOC_Os02g57400.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57400.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G123544_T01 (Zea mays), 3'ss of exon 2
gtaacatgtttttccttgtttctgcatttataaattcagaagttacaatg-agttaccaatcatcagttcattacagccaatgg-aaagctacctgaatgcattgaaataacaatggttttgtgcaactgtgcattttccaattgttctgttcagAATTAAGGAGAGAAAGGAATCAGTGACAGTACTCTTATGTGGGACTAGCGGATGCGGCAAATCTACGCTATCATCTTTGTTGGTATGTTTATCACTTACG
                                               ||| | ||| | |||| || || || ||||||| |   ||| |  | |||| | | |  | ||||| |   ||| |||          || |||  ||||| | |||||||||| |||||||||||||| |||||| ||||||| |||||||| |||||||||||||| || ||  ||||||||||| ||                  
---------------------------------------------tgatgtatttaaccatcaacaatttatcacagccactcccaaaacagcttgaaaggaattga-taacatttcctttttgc---------cttcccatatgttccgatcagAATTAAAGAGAGAAAGGAATCGGTGACAATACTCTTGTGTGGGACAAGCGGATGCGGCAAGTCCACTTTATCATCTTTGCTG------------------

upper sequence: LOC_Os02g57400.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G342327_T01 (Zea mays), 3'ss of exon 2
gtaacatgtttttccttgtttctgcatttataaattcagaagttacaatgagttaccaatcatcagttcattacagccaatggaaagctacctgaatgcattgaaataacaatggttttgtgcaac-------tgtgcattttccaattgttctgttcagAATTAAGGAGAGAAAGGAATCAGTGACAGTACTCTTATGTGGGACTAGCGGATGCGGCAAATCTACGCTATCATCTTTGTTGGTATGTTTATCACTTACG
                                                            |  || || || ||||||| |  ||||| ||||||  | | |  | |||   |   |||  | |||       | |   |||||||| | ||| | |||||||||| |||||||||||||| ||| || ||||||| |||||||| || ||||| ||||| || ||  ||||||||||| ||                  
-----------------------------------------------------------gcgacaatttatcacagccactccaaagcaacctgacagtaattga-taatgttttcttttggtaacatttccttctttgttttccaacttttccgatcagAATTAAAGAGAGAAAGGAATCGGTGGCAATACTCTTGTGTGGGACAAGTGGATGTGGCAAGTCCACTTTATCATCTTTGCTG------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgaaataacaatggttttgtgcaactgtgcattttccaattgttctgttcagAATTAAGGAGAGAAAGGAATCAGTGACAGTACTCTTATGTGGGACTAGCGGATGCGGCAAATCTACGCTATCATCTTTGTTGGTATGTTTATCACTTACG
     aaataac  putative branch site (score: 2)
                                             ttctgttc  putative PPT
     aaataacaat  TA-rich tract