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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagtctgttttgtaattgaccttaactttgttaagtttactagccaaaatgtaactatgacacttcgttgtatttatgctgaattttgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT

Basic information

species Oryza sativa
transcript LOC_Os03g19930.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g19930.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G126430_T02 (Zea mays), 3'ss of exon 1
ttagtctgttttgtaattgaccttaactttgttaagtttactagccaaaatgtaactatga-cacttcgttgtatttatgctgaattttgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT
    || |   | |  |   | |||   |||    |     |       |||||| ||||| ||            |||||||||||  |    ||   ||||||||||||| || ||| |||||||| |||| ||||| |||||||||||||| |||||||||||||||                               
aatatcagacgtttgctcttctttactattgacctgaaacatgcattgtatgtaattatgatcaggctagaactactatgctgaattg-gtgcctttacagGTGAATGAATCACGTTTAGCTGAAGACCTGGAGCAAACTTGGGAGGTCCTTGCTGAGCCAATACAGACA-------------------------------

upper sequence: LOC_Os03g19930.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G895991_T01 (Zea mays), 3'ss of exon 8
ttagtctgttttgtaattgacct----taactttgttaagtttactagccaaaat----gtaactatga-cacttcgttgtatttatgctgaattt-tgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT
         |||   |||||||     |||||| ||||| |||  |   |    |    |||| ||||| ||          | |||||||||||  ||| | |    ||||||||||| | || ||| ||||||||||||| ||||| |||||||||||||| |||||||||||||||                               
--------ctttactattgacccgagataacttggttaatttttttgcacgcgttttaagtaattatgatcaggctagatcttctatgctgaattggtgcttat--acagGTGAATGAAGCGCGTTTAGCTGAAGACTTGGAGCAAACTTGGGAGGTCCTTGCTGAGCCAATACAGACA-------------------------------

upper sequence: LOC_Os03g19930.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G359070_T01 (Zea mays), 3'ss of exon 8
ttagtctgttttgtaattgaccttaactttgttaagtttactagccaaaatgtaactatga-cacttcgttgtatttatgctgaattttgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT
   ||| |   | |  |   | |||   |||    |     |       |||||| ||||| ||            |||||||||||  |    ||   || |||||||||| || ||| |||||||| |||| ||||| |||||||||||||| |||||||||||||||                               
aatgtcagacgtttgctcttctttactattgacctgaaacatgcgttgtatgtaattatgatcaggctagaactactatgctgaattg-gtgcctttacagTTGAATGAATCACGTTTAGCTGAAGACCTGGAGCAAACTTGGGAGGTCCTTGCTGAGCCAATACAGACA-------------------------------

upper sequence: LOC_Os03g19930.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G131828_T01 (Zea mays), 3'ss of exon 1
ttagtctgttttgtaattgaccttaactttgttaagtttactagccaaaatgtaactatga-cacttcgttgtatttatgctgaattttgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT
    || |   | |  |   | |||   |||          |       |||||| ||||| ||            |||||||||||  |    ||   ||||||||||||| |  ||| || ||||| |||| ||||| |||||||||||||| |||||||||||||||                               
aatatcagacgtttgctcttctttactattgacctaaaacatgcattgtatgtaattatgatcaggctagaactactatgctgaattg-gtgcctttacagGTGAATGAATCACATTTAGCTAAAGACCTGGAGCAAACTTGGGAGGTCCTTGCTGAGCCAATACAGACA-------------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaatgtaactatgacacttcgttgtatttatgctgaattttgcctgttgttagGTGAATGAATCCCGGTTATCTGAAGACTTGGATCAAACATGGGAGGTCCTTGCAGAGCCAATACAGACAGTAAGACCATTCTTTTTGTCCTCTATATGGT
    atgtaac  putative branch site (score: 3)
                                       ttttgcct  putative PPT
                       ttgtatttat  TA-rich tract