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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattaatgcatatatcaggaaatctcttgtaaatgtttctatgtactcattttacatcttcctttttttctcctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G075992_T01 (Zea mays), 3'ss of exon 6
gtaagtattaatgcatatatcaggaaatctcttgtaaatgtttctatgtactcattttacatcttcctttttttctcctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC
            | || ||| |   | |   |  |      | |  || ||| |      || ||   ||| |||||     | |||||||||| |||||| ||||||||||| |||||||| ||  | |||||  | ||  |||||||||||||| | |||||||  || |||||||| || ||| 
------------gtatgtattaaacacttcatcttgggaaatccgttgcacttaacaataatatttagtttcttctctctctaacagTTGGAGGCGTTAATCCATCCATTCTTTGATGAACTGCGGTACCCAAACTCACGTCTACCAAATGGCCGTTCCCTTCCCCATCTCTTCAATTTTAAACCTA

upper sequence: LOC_Os01g19150.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA02G01220.3 (Glycine max), 3'ss of exon 10
-------gtaagtattaatgcatatatcaggaaatctcttgtaaatgtttctatgtactcattttac--atcttcctttttttctcctcgcac----cagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC
        |   |         | ||| |  ||   | || ||| | |||| |  |    ||| ||   | ||   || |||  |||| |  |    ||| ||||||  ||   ||| |||||||| |||||||| || ||||||||| ||||| |||||||||| |||   ||||||||||| || || ||||   |  
agttctctttcctgactgaatttttataaataatattgttataattatttccaattgaaaattatattaagctatattgtttgttcctggtgctatgcagCTGGAGGCCTTGGCTCACCCATTCTTTGATGAACTGCGTGATCCAAATACTCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA

upper sequence: LOC_Os01g19150.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA10G01280.2 (Glycine max), 3'ss of exon 11
-------gtaagtattaatgcatatatcaggaaatctcttgtaaatgtttctatgtactcattttac--atcttcctttttttctcctcgcac----cagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC
        |   |         | ||| |  ||   | || ||| | ||||    |    ||| ||   | ||   || |||  |||| |  |    ||| ||||||  ||  ||||||||||||| |||||||| || ||||||||| | ||| |||||||||| |||   ||||||||||| || || ||||   |  
tcttctctttcctgactgaatttttataactaatatttttataattatttcccattgaaaattatattaagctatattgtttgttccttgtgctatgcagCTGGAGGCCTTGGTTCATCCATTCTTTGATGAACTGCGTGATCCAAATACCCGCCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29637278|gb|CB642287.1|CB642287
EST:     TCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: TCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|86503762|gb|CI146395.1|CI146395
EST:     ACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29670122|gb|CB666397.1|CB666397
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29628248|gb|CB633259.1|CB633259
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCG
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCG
EST: gi|29668964|gb|CB665239.1|CB665239
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCCAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|8856575|gb|AU093893.1|AU093893
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCA-A-CTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29666430|gb|CB662705.1|CB662705
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29619093|gb|CB624105.1|CB624105
EST:     AGTACTCACCACACGTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: AGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29614478|gb|CB619491.1|CB619491
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29675686|gb|CB671961.1|CB671961
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29624000|gb|CB629011.1|CB629011
EST:     GGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: GGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29645803|gb|CB650810.1|CB650810
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29676371|gb|CB672646.1|CB672646
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29666992|gb|CB663267.1|CB663267
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29666993|gb|CB663268.1|CB663268
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29674068|gb|CB670343.1|CB670343
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29628249|gb|CB633260.1|CB633260
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29623354|gb|CB628365.1|CB628365
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|29668829|gb|CB665104.1|CB665104
EST:     ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: ATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
EST: gi|33808952|gb|CF330361.1|CF330361
EST:     CACCTCCGGTGCAGTGCA                         TTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT
genomic: CACCTCCGGTGCAGTGCAgtaagtatta ... ctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaaatgtttctatgtactcattttacatcttcctttttttctcctcgcaccagTTGGAGGTGTTAATTCATCCATTCTTCGATGAACTACGAGATCCAAATGCTCGCTTACCAAATGGCCGTACTCTTCCCCCACTATTCAATTTCAAGCCTC
                  ctcattttacatcttc  CT-rich tract
                     attttacat  TA-rich tract