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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttacttttgatttattcaaaatatctgctggttctcagatctttatttgaccattgtgagatagtaaaagatctgatttaatttgcatgctttaccagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG

Basic information

species Oryza sativa
transcript LOC_Os05g51480.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 8
-----------------atttacttttgatttattcaaaatatctgctggttctcagatctttatttgaccattg--tgagatagtaaaag------atctgatttaatttgcatgctttac----cagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG
                   | || |    |||  |  ||   | |  ||       || ||  ||||    ||    || ||||||           || ||||||   |   ||||| |||    |||||||| |||||||  || ||||||||||| |||||||||||| ||||||||||||| |||||||||||||||||||| ||||| ||| |||| |||||||
gtttgtttacacttcttgatgacctcacctttgctagaagagttt--tgaacaattgaactgcattttgttatgacttgtgatagttgtttttgtttatatgatttgcatcttatgctctacacttcagGATAATAAAGATGTGAGGCATGTTAAGACTTATGAAGTTGCACTGAAGGACAAAGATTTTGTTGAGGGTCCTTGGTCCCAGAATAATGTAGATAATGGTG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 8
---atttacttttgatttattcaaaatatctgctggttctcagatctttatttgaccattgtgagatagtaaaagatctgatttaatttgcatgctttaccagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG
    | || |||| |  ||      || |  | |   | |   |     || ||  ||  |     |  |    || || ||| |   ||| ||  ||  ||||| |||||||||||  | ||||| || |||||||||||| |  | ||||| ||  ||||||| || ||||| ||||| ||||||||| | ||||||||||
ctgctgtattttttaaataaattgtatcttggtttactttgctaatgcaatgtgctcaaggatgtttgctgggtgaactaattaa---tgcttgggtttacagGACAACAAAGATGCTCGTCATGTCAAAACATATGAAGTTTCTCTAAAGGATAAGAACTTTGTCGAAGGTCCATGGTCACAGAACAATCTCGACAATGGTG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
atttacttttgatttattcaaaatatctgctggttctcagatctttatttgaccattgtgagatagtaaaa-gatctgatttaatttgcatgctttac----cagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG
    |  || |||     ||   | |    |  |  |   |||   | |  |  |    ||   | | | | |  || |     ||  | || || |     |||||||||||||||||| | |||||||| |||||||| || || |||||||| || || |||||||||||||||||| | ||||||||| |||||||||| |
----aacttagatggccccactgtgttccattatg-tagcatcagaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgaccattgtgagatagtaaaagatctgatttaatttgcatgctttaccagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG
                                atttaat  putative branch site (score: 4)
                                              ctttacc  putative PPT
                           atctgatttaattt  TA-rich tract