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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgtaataaatcctcctcatctgaagttggcaaataactaattaaatgactgttgtatttaattaactaaagtaattagtggtaattaacttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC

Basic information

species Oryza sativa
transcript LOC_Os12g06340.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06340.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 2
acttgtaataaatcctcctcatc--tgaagttggcaaataactaattaaatg-actgttgtatttaattaactaaagtaattagtggtaatta--acttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC
     ||  |   |||  | |    |||||| | |    ||   || |     |||||||| |    |   |  | |    |   |  ||  |   |    ||||||||||||||||||| ||||||||||| |||||||||||| |||| || || ||||||||||||||||||||||||||||||||  |||||||||| |||
-----tagcacgccctgattaataatgaagtggtcggtcaatgcataactcacactgttgtgtcatgtgtgcgcatggcgatgtcgacaacaacggcactggcagGTGGAGCAGCGGTACCGGCAGTACCACGGGCAGATGCAGGCGGTGTCGTCGTCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGCGGACGTACACGGCGC

upper sequence: LOC_Os12g06340.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA03G36070.1 (Glycine max), 3'ss of exon 3
---acttgtaataaatcctcctcatctgaagttggcaaataactaat--taaatgactgttgtatttaattaactaaagtaattagtggtaattaacttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC
   | ||| |     |  |  |    || ||||   |||  | |  |  ||  ||| | |  ||   | || | | | ||| ||  |  |  ||   |  || ||||||||||  |||||||||||||||||| ||||||| ||   ||||   |  | || |||   || ||||||   || || || | ||| |||||  | |
ttaaattgca--tggttgtggttgattgcagttaataaaatatttgtgatagttgaat-taatagaaagtttattgatgtagtt--ttttttttctttcttgaagGTGGAGCAAAGGTACAGGCAGTACCACCAGCAGATGGAGATAGTGGGTTCATCATTTGAGCAAGCTGCGGGGATTGGTTCAGCAAGGACTTACACTGCCC

upper sequence: LOC_Os12g06340.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA02G35450.1 (Glycine max), 3'ss of exon 3
----acttgtaataaatcctcctcatctgaagttggcaaataactaattaaatgactgttgtatttaattaactaaagtaattagtggtaattaacttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC
     | |||| || ||  |  |    |  |||   | | |   || |   || | | |||| | |   |  ||||  ||  |  |  |  ||    | || ||||||||||  ||||||||||||||||| | |||||||||   |||    |  | ||||||   || || |||   || || |||| |||||||||  | |
aaggtcatgtattatataattttataatatagtc--ctactttgtagtagcattatt-ttgtttcttgatttctaatttacatgattttgtttgggat-tgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgactgttgtatttaattaactaaagtaattagtggtaattaacttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC
                                        aattaac  putative branch site (score: 2)
            tatttaattaactaaa  TA-rich tract