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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG

Basic information

species Oryza sativa
transcript LOC_Os06g49990.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 10
gtatt---tatattcttacactaaggatgtctgcagttcaaagggca-tgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
|| |    ||| |  | |||||| |||| | ||||   |       |   | ||||| |  | ||   | |      || | |      | | || | || |||||||||||||| |||||||||||||||||||| || |||||||||||||| || |||||||||||||| |||| ||| || ||||||||||| || || || ||||
gtgtggagtatttcatcacacta-ggatttgtgcaacactgtaaatagcatcttttttattggcttggatt-tggaatagcatattgacagactt-tattgtccttgcagACACATAGGATAAAGAAGTTTGTTTTGCATACAAACTTCCCTGGCCACTCAGATTTCAATTCATATAAGAAATGCAACTTTGTTATATACGACGCTGAAG

upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgc--ttgctaaccttg--ctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
                         || || |  | | |       ||| ||||      |    |  |   || |||         |||||| | | || |  || ||||| ||||  || ||||||||||| |||||||| ||||||||||||||| | ||||||||||| || || |||||||||||||||||| |||   | ||  
-------------------------gtttgtaacttacatcatgcttttgtttctatacatagtgacacaactgataatagaaactcctacatgtctgttttattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGTAACTTTGTTATCCATGGCTCAGATT

upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
   ||| ||  ||||||  | |     ||   |||   |    ||||           ||| | ||||    ||         | |||| | | || |  || ||||| ||||  || ||||||||||| |||||||| ||||||||||||||| | ||||||||||| || || ||||| ||||||||| ||||||   | ||  
--gtttgtaa-cttacatcatg-----cttttgtttctatacaatgtgccacagcacaactgataatggaaact--------cccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT

upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
||| |  | ||  |    |    |  | |  | | |       || || |    | | | |||   | ||||  ||  ||     |   || | ||    |||||||| || |  || ||||| ||||| || ||||||||||  ||||| ||| ||||||| ||||| || ||||| || |||||||||||||||| | | ||  
gtactcctttttattgtgtgtcaaaatatatattacttcaataatattgtgcatatata-tcatcgtacttg--aaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
                   tgctaac  putative branch site (score: 1)
                              ctctacatttattttc  putative PPT
                               tctacatttatttt  TA-rich tract