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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGACGGAGGATGCGGCACCCAAAAACATGGCAGCCTCTAGCAACCAGGATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatctcgaggataccattcaatttgtttgcatttcaggactttgctcgaaatgttggttccatgacctataaattgttgagatgttcgttgttga...

Basic information

species Zea mays
transcript GRMZM2G075551_T03
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075551_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os04g02500.1 (Oryza sativa), 5'ss of exon 5
AGAGACGGAGGATGCGGCACCCAAAAACATGGCAGCCTCTAGCAACCAGGATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatctcgaggataccattcaatttgtttgcatttcaggact-ttgctcgaaatg--ttggttccatgacc-tataaattgttgagatgttcgttgttga
     | |||       ||   || ||| || |   | ||   || ||||||||| |  ||||||||||||| || ||||| ||||||||||||||||||||      |    | | | |||  | ||||||    |   | |||  ||  | ||| |    | |||   ||     ||  |    || ||  || ||| |   
CTCATCAGAGAGAATTACAATGAAGAACTTGCCTAACCCTTCAAATCAGGATCAGCGTAAAACCTTGAAGTTTGGCTTCTCCAAAATGGCTCCTTCCAAGgtaccccacatctgaacaacat--attttgttaaactgatatgaccatttatggaagtaaagtagttgtgtgcttgcatggaactctgtga-atttgttttat-
















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|76285589|gb|DV025157.1|DV025157
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTTTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|78121467|gb|DV539851.1|DV539851
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTTTTTAAAATGGCTCCTTCCAAG                         GTTTTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|76282171|gb|DV021739.1|DV021739
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|60358695|gb|DN225668.1|DN225668
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|71324315|gb|DR798858.1|DR798858
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|71422269|gb|DR805671.1|DR805671
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|71433464|gb|DR814514.1|DR814514
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|93281363|gb|EB673627.1|EB673627
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTTTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|71322954|gb|DR798154.1|DR798154
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|86470692|gb|DY237062.1|DY237062
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTTTTTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|211047644|gb|FL025865.1|FL025865
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|76283407|gb|DV022975.1|DV022975
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTTTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTTT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
EST: gi|76011266|gb|DT938436.1|DT938436
EST:     ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAG                         GTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT
genomic: ATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatct ... gcaagtacagGTTCTAGTTGGTAGTGCCAGCAAGAAGCCAAAGGTTGCCACGAAAGTTTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGACGGAGGATGCGGCACCCAAAAACATGGCAGCCTCTAGCAACCAGGATCAGAGGCAAACCTTGAAGTTCGGATTCTCTAAAATGGCTCCTTCCAAGgtggatatctcgaggataccattcaatttgtttgcatttcaggactttgctcgaaatgttggttccatgacctataaattgttgagatgttcgttgttga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG