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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccttcgtcagtcggaactcctctcagcaaactgcgaaatttgttttacgtttgtgtgtgctttccatttgattttcgaactggtgtgtgtggcagTGGCGTCGGTGGAGGACGCCAAGAAGGACGTGCTCGTGGCGCTCTCCCAAATCATCGATCCCGACTTCGGGACGGACATCGTCTCGTGCGGGTTCGTCAA

Basic information

species Oryza sativa
transcript LOC_Os01g52170.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g52170.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------gtaaccttcgtcagtcggaactcct--ctcagcaaactgcgaaatttgttttacg-------tttgtgtgtgctttccatttgattt--tcgaactggtgtgtgtggcagTGGCGTCGGTGGAGGACGCCAAGAAGGACGTGCTCGTGGCGCTCTCCCAAATCATCGATCCCGACTTCGGGACGGACATCGTCTCGTGCGGGTTCGTCAA
                                             ||  |  |  |   |     ||  |  | | | |||||  |||       |||         |  |||     || || || | |||  |  | | | |  | |   | ||||| || ||||| || |||||||||||||||||| | ||||||||||||||||||||||| || ||||| ||||||||||| || ||            
gtatgctccgacttcttcagaaactctcccgcactcgcaccgcgtgttgctgttctagtttcaggcttttagcacgggaaactcagaaccagtccttaaaaatatactccgtggagtattaccgttcggtttaattcagcagCTA-GCGCCACCGTGGCCTCCGTGGATGATGCCAAGAAGGACGTGCTCATAGCGCTCTCCCAAATCATCGATCCTGATTTCGGCACGGACATCGTGTCCTG------------

upper sequence: LOC_Os01g52170.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G129208_T03 (Zea mays), 3'ss of exon 2
---------------------------------------------gtaaccttcgtcagtcggaactcct--ctcagcaaactgcgaaatttgttttacg-------tttgtgtgtgctttccatttgattt--tcgaactggtgtgtgtggcagTGGCGTCGGTGGAGGACGCCAAGAAGGACGTGCTCGTGGCGCTCTCCCAAATCATCGATCCCGACTTCGGGACGGACATCGTCTCGTGCGGGTTCGTCAA
                                             ||  |  |  |   |     ||  |  | | | |||||  |||       |||         |  |||     || || || | |||  |  | | | |  | |   | ||||| || ||||| || |||||||||||||||||| | ||||||||||||||||||||||| || ||||| ||||||||||| ||               
gtatgctccgacttcttcagaaactctcccgcactcgcaccgcgtgttgctgttctagtttcaggcttttagcacgggaaactcagaaccagtccttaaaaatatactccgtggagtattaccgttcggtttaattcagCAGCTA-GCGCCACCGTGGCCTCCGTGGATGATGCCAAGAAGGACGTGCTCATAGCGCTCTCCCAAATCATCGATCCTGATTTCGGCACGGACATCGTGTC---------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttacgtttgtgtgtgctttccatttgattttcgaactggtgtgtgtggcagTGGCGTCGGTGGAGGACGCCAAGAAGGACGTGCTCGTGGCGCTCTCCCAAATCATCGATCCCGACTTCGGGACGGACATCGTCTCGTGCGGGTTCGTCAA
                         atttgat  putative branch site (score: 5)
                         atttgatttt  TA-rich tract