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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtcccgttcgtccctccgtctgtccattggcgctcgcgcgcatgcatatgcatttgatttttgttggcgctgtagcagGAGCACATAGCATCGGGAAGGTGCATTGCAGATTCTTCAAGGACAGGATCGACAACTTCGCCGGGACAGGCGAGCCTGACGACACCATCGACGCCGACAT

Basic information

species Oryza sativa
transcript LOC_Os01g51550.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g51550.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G067096_T01 (Zea mays), 3'ss of exon 2
----------gtccgtcccgttcgtccctccgtctgtccattg-gcgctcgcgcgcatgcatatgcatttgatttttgttggcgctgta-gcagGAGCACATAGCATCGGGAAGGTGCATTGCAGATTCTTCAAGGACAGGATCGACAACTTCGCCGGGACAGGCGAGCCTGACGACACCATCGACGCCGACAT
          | | | |   |  | | ||| |  | |    || ||     |  |||||||    |     |       | || |||   |||||||| || ||||||||||||||||  ||||| ||| ||  |||||||||| |||||||||||||||| |||| ||| |||||| |||||||| | |||||
gttcgccgtcgcctgacg-atctgactctctgagtctgagctgcgcaactccctgcatgcagtgacgcaaaaggcagtcttgctctgcgcgcagGAGCCCACAGCATCGGGAAGGTGCGGTGCAGGTTCATCGCGGACAGGATCTACAACTTCGCCGGGACCGGCGCGCCGGACGACTCCATCGACCCGGACAT

upper sequence: LOC_Os01g51550.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G067096_T08 (Zea mays), 3'ss of exon 2
-------------------------------gtccgtcccgttcgtccctccgtctgtccattg-gcgctcgcgcgcatgcatatgcatttgatttttgttggcgctgta-gcagGAGCACATAGCATCGGGAAGGTGCATTGCAGATTCTTCAAGGACAGGATCGACAACTTCGCCGGGACAGGCGAGCCTGACGACACCATCGACGCCGACAT
                               | | | |   |  | | ||| |  | |    || ||     |  |||||||    |     |       | || |||   |||||||| || ||||||||||||||||  ||||| ||| ||  |||||||||| ||||||||||||||||                                 
gtgagaccgtcgcgctcctaggttcgccgtcgcctgacg-atctgactctctgagtctgagctgcgcaactccctgcatgcagTGACGCAAAAGGCAGTCTTGCTCTGCGCGCAGGAGCCCACAGCATCGGGAAGGTGCGGTGCAGGTTCATCGCGGACAGGATCTACAACTTCGCCGGGACC--------------------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattggcgctcgcgcgcatgcatatgcatttgatttttgttggcgctgtagcagGAGCACATAGCATCGGGAAGGTGCATTGCAGATTCTTCAAGGACAGGATCGACAACTTCGCCGGGACAGGCGAGCCTGACGACACCATCGACGCCGACAT
                            atttgat  putative branch site (score: 5)
                            atttgatttttgtt  TA-rich tract