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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccaatctttatgcgccagaaactctgactgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA

Basic information

species Oryza sativa
transcript LOC_Os08g04420.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g04420.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G093858_T02 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------------------------------------gtaagccaatctttatgcgccagaaactctgac-tgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA
                                                                                                   |    |     |   |  ||||| |||| | ||||| ||  | |||  ||  | | ||   ||||||| ||||| ||||| ||| |||||||||||||||||||||||||||| ||||| ||||| || |||||||||||||||||| | || || | |||||| |
gtaattaataagctagctagcatttaaatatacatatacgcctgacgcctgtatatatatcgtttgatttagacctagaccacctcactagctagaaggaaaggaaagaaaaaagaaagaaaatctggcatgcttagtgctgatt-aattaattcttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGCTACTGCGCCGACAAAGGGCAGCATATGCTACTGTACGCGTACATGCCGA

upper sequence: LOC_Os08g04420.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA12G16650.1 (Glycine max), 3'ss of exon 2
---------------------------------gtaagc-caatctttatgcgccagaaactctgactgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA
                                  ||    |  ||||| | | |||||  |  |  |   |      || | ||  | ||| ||  ||||||||  |  |  | ||| | || ||||| ||||| ||||||||||||||||| ||| | |||||||| ||||| | ||||||  |||||| || ||||  ||
ttttacagtctttatcatatacaatcattttctttactttctttctttttactccagagtcattttcaattgtaacattctatgcaatactttt--tttcagGTCATGTTGTTGGGAAGGTTACACCATAGGAATCTGGTGAATTTGGTTGGATATAGTGCTGAAAAGGGGCAACGTATGCTTGTATATGTATACATGAGTA

upper sequence: LOC_Os08g04420.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------gtaagccaatctttatgcgcca--gaaactctgactgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA
                              ||||   |  ||||   |   |  | | || ||  || |      |||    ||      ||  | |||||||    | || ||| | || || || || ||||| |||||||||||||| ||||| || ||||| || |||||||||||  ||||||  | ||||  ||
catgaatgttcctgcctcttactgcaaaatgtaataaacacttttccccttatggtagctttgcttgttattacattaccctatttttatttgttctcagGTTCACTTACTGGGAAGGTTACATCATAGAAACCTCGTGAATTTGGTTGGGTATTGTGCCGAAAAGGGCCAGCATATGCTTATATATGTCTACATGAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcgccagaaactctgactgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA
                                           tgttaat  putative branch site (score: 3)
                           tatttatttgataga  TA-rich tract