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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccaaaattattcaaatcaatccgccatgcatgcaatgcaaactcaaataaaaaaaccaaaaaaaaaggaaaaaaaaagggcactaaaaagttttttgggtttattttttgttttttttttggggtggcagGTGTACAAGCTGTCGATCGGGGCAGCGTGCGGGCTATCGTGGCCGTCGGATCGGGTGATCGTGCAGGTGCTCGACGACTCCACTGACCCCGTCATCAAG

Basic information

species Oryza sativa
transcript LOC_Os06g42020.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g42020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G443715_T01 (Zea mays), 3'ss of exon 1
--------------------------------------gtaaccaaaattattcaa--atcaa----tccgccatgcatgcaatgcaaactcaaataaaaaaaccaaaaaaaaaggaaaaaaaaagggca--------ctaaaaagttttttgggt--ttattttttgttttttttttggggtggcagGTGTACAAGCTGTCGATCGGGGCAGCGTGCGGGCTATCGTGGCCGTCGGATCGGGTGATCGTGCAGGTGCTCGACGACTCCACTGACCCCGTCATCAAG
                                       |  |     |  |      |||||    | |    |  ||  || || | ||   |    |  ||  | | | |  ||    |   | ||         ||     | |   ||| |   |   |  || |   |   |||    ||||||||||||| ||||||||||||| ||||||||||| |||||||||||||| ||| | |||||||||||||| ||||||||||| ||||||||| |||||
gtgagtgagcgcctgccggacggacgccggcgccggcgttggctctggtcgtctcgcgatcaaagcgttcatttttaatttaaggctagctagtaggggaggacttacatacactgaccgtacgtgtgcgtgcgtgtgctgggctgctggctggctggctgcatggtggtgcgtgcgtggacgtgcagGTGTACAAGGTGTCGATCGGGGCGGCGTGCGGGCTGTCGTGGCCGTCGGACCGGATCATCGTGCAGGTGCTGGACGACTCCACCGACCCCGTCGTCAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagggcactaaaaagttttttgggtttattttttgttttttttttggggtggcagGTGTACAAGCTGTCGATCGGGGCAGCGTGCGGGCTATCGTGGCCGTCGGATCGGGTGATCGTGCAGGTGCTCGACGACTCCACTGACCCCGTCATCAAG
     cactaaa  putative branch site (score: 2)
                        tttattttttgttttt  putative PPT
        taaaaagttttttggg  TA-rich tract