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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtggaacaagaaagctgtgcttgattatattgttcgaatacatttatcccaccatgcattctgtctatgaactgaaggtcatgcaactgcaacaattggtatttatcttttgtttgtttcatttgataagagaatgtgtttttgcagAATGAGGATCGTAAGCTGTGGAAGCTGGATACATTGCCTCCAGGACTGATTACTTTCTACAACCTGACATACCCATTGAATCGCACTTGGCATGTGTTGG

Basic information

species Oryza sativa
transcript LOC_Os06g51160.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g51160.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G028501_T01 (Zea mays), 3'ss of exon 7
gtaagtagtggaacaagaaagctgtgcttgattatattgttcgaatacatttatcccaccatgcattctgtctatgaactgaaggtcatgcaactgcaacaattggtatttatcttttgtttgtttcatttgataagagaatgtgtttttgcagAATGAGGATCGTAAGCTGTGGAAGCTGGATACATTGCCTCCAGGACTGATTACTTTCTACAACCTGACATACCCATTGAATCGCACTTGGCATGTGTTGG
|||||||||||||  |||||  |     |||||  ||||      | ||| || |||| |||  |         |||||              ||| ||  | |           |||||| |||||  ||  ||| |||| |   | |||||||||||||| ||||||||||||||||||| |||  ||||||||||  | |||||||||||||||||||||||||| |||||||| ||||||||||| ||||
gtaagtagtggaatgagaaatgtactgctgattgcattgcctcgttgcatatagcccatcattta--------gtgaac--------------ctgtaatgaat-----------tttgtt-gtttcgcttactaatagaa-gacctattgcagAATGAGGACCGTAAGCTGTGGAAGCTGGGTACGCTGCCTCCAGGTTTAATTACTTTCTACAACCTGACATACCCGTTGAATCGTACTTGGCATGTCTTGG

upper sequence: LOC_Os06g51160.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv03s0038g03750.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtagtggaacaagaaagctgtgcttgattatattgttcgaatacatttatcccaccatgcattctgtctatgaactgaaggtcatgcaactgcaa--caattggtatttatcttttgtttgtttcatttgataagagaatgtgtttttgcagAATGAGGATCGTAAGCTGTGGAAGCTGGATACATTGCCTCCAGGACTGATTACTTTCTACAACCTGACATACCCATTGAATCGCACTTGGCATGTGTTGG
                                                         |  ||   | | |||    ||   ||   | | | | | |||  ||  |   |||| ||||     |  ||||           |||    ||||||||||||| ||| | |  || ||||| || |   | ||||| || |||||||| |||||||||||||||||||| |||||| |||| |  |||||||||||||
--------------------------------------------------------gatgatttttccagtcacccaaagaaaatgcctcctattccaatacatctaaaatttttcttcatcatcattcacaactcgtctaaatcctgttttgcagAATGAAGATAGAACTCTCTGGAAACTTGGATCGTTGCCACCGGGACTGATCACTTTCTACAACCTGACATATCCATTGGATCGTAGCTGGCATGTGTTGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattggtatttatcttttgtttgtttcatttgataagagaatgtgtttttgcagAATGAGGATCGTAAGCTGTGGAAGCTGGATACATTGCCTCCAGGACTGATTACTTTCTACAACCTGACATACCCATTGAATCGCACTTGGCATGTGTTGG
                            atttgat  putative branch site (score: 5)
                                            tgttttt  putative PPT
       tatttatcttttgttt  TA-rich tract