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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGGAGATGATGCAGCAGGAGATCATCCCACCGCTGAAGGATGCCTTGGAGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtcagtacttaatcactcaaatacagaatgcttggagctagtgaacgtactagttcctgagttactaaaaactggtggcattggtactgtgca...

Basic information

species Zea mays
transcript GRMZM2G009320_T01
intron # 2
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|4688541|gb|AI637211.1|AI637211
EST:     AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACG                         CTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
EST: gi|211185368|gb|FL306759.1|FL306759
EST:     AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAA-CAACACG                         CTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCT
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCT
EST: gi|37394767|gb|CF634660.1|CF634660
EST:     AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACG                         CTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
EST: gi|211534809|gb|FL337821.1|FL337821
EST:     AGGCGGAGGACGACGTGTCCCANGTGCAGCTCGCCTTCCAAAACAACACG                         CTGGGAGGGATCCTTCATAAAGGACGACGTCCCTTATTATTTTTGGGCCTT
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGG-AGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTT
EST: gi|211423743|gb|FL401025.1|FL401025
EST:     AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACG                         CTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
EST: gi|13126459|gb|BG317029.1|BG317029
EST:     AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACG                         CTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC
genomic: AGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtc ... tggattgcagCTGGAGGGATCCTTCATAAAGAACGACGTCCCTTATTATTTTTGGGCCTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCGGAGATGATGCAGCAGGAGATCATCCCACCGCTGAAGGATGCCTTGGAGGCGGAGGACGACGTGTCCCAGGTGCAGCTCGCCTTCCAAAACAACACGgtaagtagtcagtacttaatcactcaaatacagaatgcttggagctagtgaacgtactagttcctgagttactaaaaactggtggcattggtactgtgca

- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC