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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttccttgtatatgcatggcttctgatgtctttagcatcctgacacgtgatcctggtgtgatgatgactgaaagctaactctgctgcacacttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA

Basic information

species Oryza sativa
transcript LOC_Os06g41880.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g41880.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G073223_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------------------gtaatttccttgtatatgcatggcttctgatgtctttagcatcctgacacgtgatcctgg-tgtgatgatgactgaaagc----taactctgctgcac-------acttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA
                                                                            | | |   || ||   |  |   |||  |        ||  |   |   ||    || | |||||||   |      ||    ||| |||| ||| |       | |||| |||| |||||||| ||| |||| ||||||||||||||||||||| | || | |||||| ||||| |||||||||||||||||||||  |  ||||| || | |
gtaattagtttcacaacacaggctactcttttagaatttaatcttggtccaaaacaagttagattacatcatagtctgagtagattatacgggtttcatttcccaaacagacggcccctaaatgagtctagctagctgtgatgccaaaaaggcgcctaataattctgatgcgcgtcttcaatttcttcagAGATGCCTGGCGTCGTCTCGGTGTTCCCAAACACAAAGAGGCGACTGCGCACCACCCATTCCTGGGATTTCATGGGCTTGTCCACCAGTGCAGAGGGTCA

upper sequence: LOC_Os06g41880.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA11G09420.1 (Glycine max), 3'ss of exon 1
-----------------------------gtaatttccttgtatatgcatggcttc-tgatgtctttagcatcctgacacgtgatcctggtgtgatgatgactgaaagctaactctgc-tgcacacttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA
                                 |||  ||| | ||      |    |||| || ||  |  | | |    | ||  |  |  | |  ||  | |   ||   |     | || | ||   |||| ||||| || ||  | || || || || ||  | || || |  || |||||||||||||||||||||||||| ||  | |  | | ||| | |    ||
gtcagtgaaatttcaccccatttcttttctctttttttttgcaaataataaacacaatgatttcattcactccttaaactttaatatttataggctcttg--taatttcttttttcatgttcaaatttgatcagAAATGCCAGGGGTGGTATCTGTTTTTCCCAATGCTAAAAGAAAGCTTCACACCACTCATTCATGGGATTTCATAGGACTTTTGGGCAATGAATCAATGGA

upper sequence: LOC_Os06g41880.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------gtaatttccttgtatatgcatggctt--ctgatgtctttagcatcctgacacgtgatcctggtgtgatgatgactgaa--agctaactctgctgcac--acttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA
                         ||  ||||||| | | |   ||  |    | || |   |       || |   | |||  |  ||  ||||   ||||  ||  || | ||  |  |         |||||||||| || ||  |||| ||||| || ||   ||| || || || |||||||||||||| ||||||||||||||  |    | ||| | | |    ||
gtcagtctttttcttttttctccctgttttttccttctcttttagtgcttcaattaattttcctcctcgtgtgtcctatcatctcga-gttttgattgttgaactagagaaatttgtgggtctggaaatgacagATATGCCCGGCGTGGTCTCTGTGTTTCCCAATTTAAAAAGAAGGCTGCACACCACTCATTCGTGGGATTTCATGGGTCTCGTGGGCGAAGAAACCATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgtgatcctggtgtgatgatgactgaaagctaactctgctgcacacttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA
                            agctaac  putative branch site (score: 2)
                                            cacttct  putative PPT