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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcagtccagtccagtccagtccagtgtgtttctgatcttggcgttggctgccactccgcggttgatttgtgtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCGCGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCAT

Basic information

species Zea mays
transcript GRMZM2G171349_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g04030.3 (Oryza sativa), 3'ss of exon 11
gtaagtcagtccag---tccagtccagtccagtgtgtttctgatcttggcgttggct--gccactccgcgg---------ttgatttgt---gtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCG-CGGTGCATGATCCAGTGA-TCAGGCGGCCCTTGGACCCCCAATACGTATGCAT-
|||||    ||| |   | |  | | ||    ||   |||   |  |    | ||||     ||     ||         |||| | ||    | | |||||| |||||||||||||||| ||||||||||| || ||||| |||||| |  |  |          |    || |  || ||  | ||  | |  ||  | |    || |    |     |||     | 
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagcagAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCTGTA

upper sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g04030.2 (Oryza sativa), 3'ss of exon 11
gtaagtcagtccag---tccagtccagtccagtgtgtttctgatcttggcgttggct--gccactccgcgg---------ttgatttgt---gtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCG-CGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCAT
|||||    ||| |   | |  | | ||    ||   |||   |  |    | ||||     ||     ||         |||| | ||    | | |||||| |||||||||||||||| ||||||||||| || ||||| |||||| |  |  |          |    || |  || ||  | ||  | |    |   |   ||       |         ||  
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagttttgccttcaacagCAGAATCCATTCCGCTGGTGATGGACGGGTTTAAAGCAAGAAGCGGTGATGGAGCTCGGTCGTGCGTCTCGTGTGTTGTTTTGTGTGCGTCGTCGTCGCT-

upper sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g04030.1 (Oryza sativa), 3'ss of exon 11
gtaagtcagtccag---tccagtccagtccagtgtgtttctgatcttggcgttggct--gccactccgcgg---------ttgatttgt---gtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCGCGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCAT
|||||    ||| |   | |  | | ||    ||   |||   |  |    | ||||     ||     ||         |||| | ||    | | |||||| |||||||||||||||| ||||||||||| || ||||| |||||| |  |    |||   |  || | |  ||||||   || |    | ||  ||| | | ||         |  |       
gtaaggggctcctgcttttcttttccgttggatgatcttcatcttattatataggcttgattacgttttggaagaactcattgactcgtttcatcatctgattccattaaagTTTTGCCTTCAACAGCAGAATCCATTCCGCTGGTGATGGAC----GGGTTTAAAGCAA-GAAGCGGTGATGGAGCT--CGGTCGTGCGTCTCGTGTGTTGTTT-TGTG-------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccactccgcggttgatttgtgtgagctgatttcattaaagttttgcctccaacagCAGAACCCGTTCCGATGGTGACGCGCCAGGGGGGGAAGGGCGATGGCGCGGTGCATGATCCAGTGATCAGGCGGCCCTTGGACCCCCAATACGTATGCAT
                       agctgat  putative branch site (score: 4)
                                        ttttgcctcc  putative PPT
                            atttcattaaagtttt  TA-rich tract