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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttcatcctgttgcatgtatactcacagtttacggtattaaatcttcttctagccacatatattctcacactttagtgtatgaaatctgcatcttacatgtgtactctcaatttactatataacttatcttgcattcgttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA

Basic information

species Oryza sativa
transcript LOC_Os03g02150.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 18
gtaaattttcatcctgttgcatgtatactcacagtttacggtattaaatcttcttctagccacatatattctcacactttagtgtatgaaatctgcatcttacatgtgtactctcaatttactatataacttatcttgcattcgttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA
                                                                                              | | ||  |||   ||      |     | | |   | | | |  |||  ||||||| | || |||||  |   |||||| ||| || | ||| | ||||| ||||||| |||||||||||||||||||| |||||  |||||||||||||||||||||| |||||  |||| ||||||||||||||||| |||||| ||||  
----------------------------------------------------------------------------------------------gtaactc-cattgatag----gacactttctcttggtcaacgtcaatttattccattgagaaggattt--tccccttactgtgggtt-atttgccaaatct-agTCTGCACTGTTGAAGAAGGCTGAAGACGCTGAAATTGACACAGCAGAGCAAAGTGCCATAAAGCTACGCAGTCAGCAACAAACATCTAGTGCTCTTGTTG

upper sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G092741_T01 (Zea mays), 3'ss of exon 3
gtaaattttcatcctgttgcatgtatactcacagtttacggtattaaatcttcttctagccacatatattctcacactttagtgtatgaaatctgcatcttacatgtgtactctcaatttactatataacttatcttgcattcgttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA
                                                                                                       |  |  | |   |   ||| || | |  | |  |  |||  | | ||| | ||  |||  |    |||||| ||| || | ||| | ||||  ||||||| ||  |||||||||||||||| |||||| ||||||||||||||||||||||||||||  |||| |||||||||||||| || |||||| ||||  
-----------------------------------------------------------------------------------------------------gtaactccattgctaggatacaattttatct-tggtcaatttatgctattgagaagaattcctcccccttactgtgggtt-atttgccaaatcc-agTCTGCACTTCTGAAGAAGGCTGAAGACGCTGAGATTGACACAGCAGAGCAAAGTGCTATAAAGCTACGCAGTCAGCAACAAACTTCCAGTGCTCTTGTTG

upper sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 17
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 17
gtaaattttcatcctgttgcatgtatactcacagtttacggtattaaatcttcttctagccacatatattctcacactttagtgtatgaaatctgc-----atcttacatgtgtactctcaatttactatataacttatcttgcattcgttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA
                      || |  | |  |  |      | | || | ||   |      |||  | |||   ||| |  |   ||||||       ||  | | ||  | |||||   |      | |  |||| | | ||        || ||| | | |  | | || |            ||| || ||   |||||  |  || | || || || ||||||||||| |||||||| ||||||||||||||||| || || ||    ||||| || || || | |||| | ||  
----------------------gtgtgtttatgggct------tcatatttgctcagaataggttattctatcattattttgaattccaaatctattagagattgtgcttggttgctctc---tggaggaaaattttatgtagtatgtaaattgttgacactaactgttatatcct------------cttttctaaatgtagTCCTCATTGCTTAAAAAAGCCGAAGATGCTGAAGTTGACACTGCAGAGCAAAGTGCTATCAAGTTGCGGGCACAGCAGCAGACTTCAAATGCTTTGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccattaacaatgatttgtttttcttactatggatttacttgtcgaatcttagTCTGCTCTGTTGAAGAAGGCTGAAGATGCTGAGGTTGACACAGCAGAGCAAAGTGCTATAAAATTACGAAGTCAGCAACAAACATCGAGTGCTATTGTCA
                       ttcttac  putative branch site (score: 2)
     attaacaatgattt  TA-rich tract