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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacag

Basic information

species Zea mays
transcript GRMZM2G081682_T01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081682_T01 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os07g47290.3 (Oryza sativa), 5'ss of exon 15
CTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacag
|||||| |||||  | ||||||||| | |||||||| |||||||| ||||| ||||| |||||||||||||| ||  | ||||||||    ||   |   || |||||     |   | || || |   |  |    || ||||  ||  | | |  ||||||||    |     |||    |    | | | |   | |                                              
CTGCCACCATGAGCTTGAGACTGCAAGAATTAATGGTCTGCTTGGGAATATTGATGCCAACACTGGTGATCCCCAGATCGgtatgtgcgcatgcctt---tagctcctgaaagtcacattatgcctgaaattc----ttgtttgatttcgatttgtgacatacataggatataacatttcaatgcttatatatatggacag---------------------------------------------

upper sequence: GRMZM2G081682_T01 (Zea mays), 5'ss of exon 15
lower sequence: GLYMA17G07380.1 (Glycine max), 5'ss of exon 15
CTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca---ctgttgtata-taactcctttgttttttaa--taagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacag
 || ||||||||  | || |||||| |||| |||||  |||| || ||||| |||||||||||||||||||||||||||||||||| | |   || |  | || ||| || | |   ||||||  ||     |||| | ||  | |  |      ||| ||||    |  || | |       | || |      ||                                                       
TTGTCATCATGAGCTCGAAACTGCAAGGATCAATGGATTGCTGGGTAATATTGATGCAAACACTGGTGATCCTCAAGTTGgtatgtatgaattctctcatttaataaatcatgtaaattttaacatagaaacatgaactgaggtaacatac----cacaagaatggaagttgtaatatgaagctgttattactgcag-------------------------------------------------------
















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|211073602|gb|FL380705.1|FL380705
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|211046951|gb|FL455967.1|FL455967
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|26559536|gb|CA831771.1|CA831771
EST:     CACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: CACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|32916469|gb|CF021281.1|CF021281
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|6194746|gb|AW146850.1|AW146850
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|87155905|gb|DY400694.1|DY400694
EST:     ACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: ACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|211046948|gb|FL455964.1|FL455964
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|7145170|gb|AW506651.1|AW506651
EST:     GGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: GGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|32866939|gb|CF006621.1|CF006621
EST:     TCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|33104022|gb|CF063982.1|CF063982
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|74232803|gb|DT640717.1|DT640717
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|5846747|gb|AI999830.1|AI999830
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|60358930|gb|DN225903.1|DN225903
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|60398484|gb|DN231300.1|DN231300
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|211313620|gb|FL416741.1|FL416741
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|31250143|gb|CD219167.1|CD219167
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|76014001|gb|DT941171.1|DT941171
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|211371193|gb|FL385803.1|FL385803
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
EST: gi|211434578|gb|FL418942.1|FL418942
EST:     TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTG                         GTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA
genomic: TAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtca ... ttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCCATCATGAATTGGAGACTGCACGGATTAATGGGCTGCTTGGAAATATCGATGCAAACACTGGTGATCCTCAAGTTGgtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatgcatagtaacttaccttaccgttatggacag

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