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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTACACACCCAATTCCTCGCAACTGGGCTCCCCCGCCTCCACGACACTGCCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcccccctccgcatctctctctctctcgccgatcggatatccgcactcgcactcgcacggcgccgctcgcctgcttgctgcgcggccgcgcct...

Basic information

species Zea mays
transcript GRMZM2G410515_T01
intron # 1
splice site 5'
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|211417839|gb|FL018169.1|FL018169
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|91056859|gb|EB167277.1|EB167277
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211005245|gb|FL018195.1|FL018195
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002469|gb|FL018188.1|FL018188
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417840|gb|FL018170.1|FL018170
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417848|gb|FL018178.1|FL018178
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002475|gb|FL018194.1|FL018194
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|71765383|gb|DR963320.1|DR963320
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211005246|gb|FL018196.1|FL018196
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002473|gb|FL018192.1|FL018192
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211005249|gb|FL018199.1|FL018199
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417844|gb|FL018174.1|FL018174
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417847|gb|FL018177.1|FL018177
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCC-                         --GTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002464|gb|FL018183.1|FL018183
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|76294009|gb|DV033577.1|DV033577
EST:     CCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
genomic: CCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|89248325|gb|DY620111.1|DY620111
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|78075888|gb|DV504322.1|DV504322
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002465|gb|FL018184.1|FL018184
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAA-AGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417850|gb|FL018180.1|FL018180
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCC-                         --GTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211415305|gb|FL018166.1|FL018166
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211417841|gb|FL018171.1|FL018171
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA
EST: gi|211002466|gb|FL018185.1|FL018185
EST:     CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCG                         TAGTCTGCCTGTACCTATTGGCTGAAGAAGAGCTGACCCCCACTTTATCAA
genomic: CCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcc ... gaatttgcagTAGTCTGCCTGTACCTATTGGCTGAAGCAGAGCTGACCCCCACTTTATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTACACACCCAATTCCTCGCAACTGGGCTCCCCCGCCTCCACGACACTGCCCCCCGCCTCAAGTCCGCCGCCTCCATTCTTCAGCTCTCCTATCCTCCGgtgagtagcccccctccgcatctctctctctctcgccgatcggatatccgcactcgcactcgcacggcgccgctcgcctgcttgctgcgcggccgcgcct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC