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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgaatgcagattaggctactgttttttttctgtggtacaaagtattccatattgttcttttctgatcattcgtctgaatggtgtatcacagGTTTATGAAATATTGGATAATGCCGTGGATGAAGCTCAAGCAGGCTACGCCACTAAGGTTGATGTTATCCTTCATGGCGACAATTCAGTTAGTGTAACAG

Basic information

species Oryza sativa
transcript LOC_Os01g16290.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G111014_T01 (Zea mays), 3'ss of exon 3
gtatattgaatgcag-attaggctactgttttttttctgtggtacaaagtattccatattgt-tcttttctgatcattcgtctgaatggtgtatcacagGTTTATGAAATATTGGATAATGCCGTGGATGAAGCTCAAGCAGGCTACGCCACTAAGGTTGATGTTATCCTTCATGGCGACAATTCAGTTAGTGTAACAG
||||||  |||||   |||| ||| |||||  |    |    |  || |  |||    || | |||| | || |||||  | ||  |||| ||||| ||||||||||||| ||||||||||| ||||||||||||||||| ||| | ||  | ||| |||||||  | |||||||  |||||||| || ||||||||||
gtatatcaaatgcgatattatgcttctgttcctgcatt----tttaacgcgttctgctttatgtcttatttggtcattgttttggttggtttatcatagGTTTATGAAATCTTGGATAATGCTGTGGATGAAGCTCAAGCGGGCCATGCTTCGAAGATTGATGTAGTTCTTCATGATGACAATTCTGTCAGTGTAACAG

upper sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 3
-----gtatattgaatgcagattag--gctactgttttttttctgtggtacaaagtattccatattgttcttttctgatcattcgtctgaatggtgtatcacagGTTTATGAAATATTGGATAATGCCGTGGATGAAGCTCAAGCAGGCTACGCCACTAAGGTTGATGTTATCCTTCATGGCGACAATTCAGTTAGTGTAACAG
     || |  |   |   | ||    ||  ||||||| ||  ||   |      | |||     | ||  ||  |||  |   || |   |||||  ||| |||| |||||||| ||||||||||| || |||||||||||||| || |  ||  | ||| |||||||| |  | | ||  ||  |||| || ||  | ||||
gtattgtcttctagcttttgtttttttgcagctgttttgttgatgctttgtttt-tgttctgaggtttttcttattgaagaagtgtttatgtggtg--tcatagGTGTATGAAATTTTGGATAATGCTGTTGATGAAGCTCAAGCTGGGTTTGCTTCCAAGATTGATGTTGTTTTACTTGCGGATGATTCTGTGAGCATCACAG

upper sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 3
gtatattgaatgc---agattaggctactgtt---ttttttctgtggtacaaagtattccatattgttcttttctgatcattcgtctga--atggtgtatcacagGTTTATGAAATATTGGATAATGCCGTGGATGAAGCTCAAGCAGGCTACGCCACTAAGGTTGATGTTATCCTTCATGGCGACAATTCAGTTAGTGTAACAG
|||||||   | |   |   | || |  |||    ||| ||||    |  |||  ||  ||  |      ||  || | | |     ||  ||| | |     |||||||||||||||||||||||||| | ||||| |||||||| || |  ||  | ||||| || ||| |  | | ||  ||  |||| || ||  | || |
gtatattatttcctttaacattggtttttgtggaatttgttctaattttgaaatcatctcagctgaaaacttgttgctgaattaatcgactatgctttcctttagGTTTATGAAATATTGGATAATGCCATTGATGAGGCTCAAGCTGGATTTGCTTCAAAGGTAGACGTTGTTTTACTTGCTGATGATTCTGTAAGCATCACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagtattccatattgttcttttctgatcattcgtctgaatggtgtatcacagGTTTATGAAATATTGGATAATGCCGTGGATGAAGCTCAAGCAGGCTACGCCACTAAGGTTGATGTTATCCTTCATGGCGACAATTCAGTTAGTGTAACAG
                       ttctgat  putative branch site (score: 3)
            atattgtt  TA-rich tract