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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggattgatcatgccccagatatctacattgatataaatttggcaagatatctcaatttgacaaacaaagcatatattgatacaaattcatactttgcagGGCAGAGAGTCATTGGTGAACCTGTGGTTTCTGGGCTAGTACTTGATGATTCTTGGCTTTGGGATCCGGACTTCATGATAGCTTCAAA

Basic information

species Oryza sativa
transcript LOC_Os01g59340.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 6
---tggattgatcatgcccc-agatatctacattgatataaatttggcaagatatctcaatttgacaaacaaagcatatattgatacaaattcatactttgcagGGCAGAGAGTCATTGGTGAACCTGTGGTTTCTGGGCTAGTACTTGATGATTCTTGGCTTTGGGATCCGGACTTCATGATAGCTTCAAA
    | | ||   |       |||||  |   ||  |  |    | ||  ||  ||    |||   ||    |  |  |  |  |  |||   | |||||||||||||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||||| ||| ||||||||
ctgagaactggatactttttgagatagatcatttactgaatgcctcgcttgac-tcaatttttagtaactggactaggttatactttaaa---aaactttgcagGGCAGAGAGTCATCGGTGAACCTGTGGTTTCTGGACTAGTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAA

upper sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 6
tggattgatcatgccccagatatct-acattgatataaatttggcaagatatctcaatttgacaaacaaagcatatattgatacaaattcatactttgcagGGCAGAGAGTCATTGGTGAACCTGTGGTTTCTGGGCTAGTACTTGATGATTCTTGGCTTTGGGATCCGGACTTCATGATAGCTTCAAA
| | |      ||  |   |  ||| |      ||| |  |   | |   || |  | |    |     || |   ||| |      ||  |    |||||| ||||| || ||||| || || || ||||||||| |||| |||||||||||| |||| |||||||| |||||||| |  ||  ||||
taggtgatatctgaactgaacttctgatgcaactattatctgatctaatgattttgagtcttaatcaggagtaaccattcacttttcttt-tgaactgcagGACAGAGGGTTATTGGAGAGCCAGTAGTTTCTGGGTTAGTCCTTGATGATTCTGGGCTCTGGGATCCTGACTTCATCAACGCAGCAAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatatctcaatttgacaaacaaagcatatattgatacaaattcatactttgcagGGCAGAGAGTCATTGGTGAACCTGTGGTTTCTGGGCTAGTACTTGATGATTCTTGGCTTTGGGATCCGGACTTCATGATAGCTTCAAA
                             tattgat  putative branch site (score: 3)
                          atatattgatacaaat  TA-rich tract