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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgacatgcatctttatggaactccgaccagcttttagctaccctgtttctcgaatctgccatgttcagaaacactggagcaggcagttcatggtccaagactctctgaatcaatggctattttgtctctatgttcatgcttgctgcagtctgtaacgtttgtatgtatcttgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGACGCTCGTGGAGCCGACGAGCGGCAACCTGGGGCTGGGCCTGGTCCTCGTC

Basic information

species Zea mays
transcript GRMZM2G443985_T03
intron # 16
splice site 3'
intron type U2

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|78109374|gb|DV527790.1|DV527790
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|50334375|gb|CO529501.1|CO529501
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|211501781|gb|FL158262.1|FL158262
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|50324042|gb|CO519168.1|CO519168
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|211535403|gb|FL360264.1|FL360264
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|76282427|gb|DV021995.1|DV021995
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|211457548|gb|FL334940.1|FL334940
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|71765602|gb|DR963539.1|DR963539
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|89757661|gb|DY687168.1|DY687168
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
EST: gi|148992991|gb|EE033699.2|EE033699
EST:     GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAG                         AATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC
genomic: GTGGAGGCGTACCAGCCTCTGTGCTCCGTCAAGGATCGCAGCGCTCTGAGgtccgacatg ... tgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctatgttcatgcttgctgcagtctgtaacgtttgtatgtatcttgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGACGCTCGTGGAGCCGACGAGCGGCAACCTGGGGCTGGGCCTGGTCCTCGTC
                        ctgtaac  putative branch site (score: 3)
                                          tcttgttct  putative PPT
                                tttgtat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgacatgcatctttatggaactccgaccagcttttagctaccctgtttctcgaatctgccatgttcagaaacactggagcaggcagttcatggtccaagactctctgaatcaatggctattttgtctctatgttcatgcttgctgcagtctgtaacgtttgtatgtatcttgttctgaagAATGATCGAAGACGCAGAGGAGAGGGGGCTGATCTCGCCCGGCACCACGACGCTCGTGGAGCCGACGAGCGGCAACCTGGGGCTGGGCCTGGTCCTCGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG