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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGTGCGGATGCCGGCAGCTGGTTCCAAAGGGGCACCTAAAAACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggcatttgcaaagattgatgtactttctgtgaatatgtacaactacttttgttatgtgtttcctcaaaattactggatcatcagctaagctgg...

Basic information

species Zea mays
transcript GRMZM2G170291_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G170291_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g18200.1 (Oryza sativa), 5'ss of exon 2
GAAGTGCGGATGCCGGCAGCTGGTTCCAAAGGGGCACCTAAAAACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggcatttgcaaagattgatgta-ctttctgtgaatat-gtacaactacttttgttatgtgtttcctcaaaattactggatcatcagctaagctgg--
|||||||||||||| ||||||||||||||||||||||| ||||| ||  || |||| ||||||||||||||||  ||||| ||||||||||||||  |       ||  ||||||| ||| |  ||||||||| | |  | ||     |  | |||   | ||  ||    ||     |  |  ||  |        
GAAGTGCGGATGCCAGCAGCTGGTTCCAAAGGGGCACCAAAAAATCCTGGTCAACTGAAAGATGACACAAGCTCATCACGAGATGAAAAGCAGgtaatacaagcatta-aaagattaatgaaattttctgtgacttttatgcagaagttaatatta---gatttgtcgtgcttttcataatactaggcagatcaaga
















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|78105400|gb|DV523818.1|DV523818
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|71770443|gb|DR968380.1|DR968380
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTTCAA-GACTACCGTGTCTG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTT-CAAAGACTACCGTGTCTG
EST: gi|211194081|gb|FL030608.1|FL030608
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTCGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|211261839|gb|FL294946.1|FL294946
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAA
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAA
EST: gi|211321949|gb|FK966255.1|FK966255
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCASCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|94475567|gb|EB704525.1|EB704525
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|71431551|gb|DR812601.1|DR812601
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|149095617|gb|EE168978.2|EE168978
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|76018500|gb|DT945670.1|DT945670
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|40287182|gb|CK327574.1|CK327574
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|71771442|gb|DR969379.1|DR969379
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|211194080|gb|FL030607.1|FL030607
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|211471748|gb|FL295692.1|FL295692
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|91872355|gb|EB402312.1|EB402312
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|78074005|gb|DV502439.1|DV502439
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|84980468|gb|DW530817.1|DW530817
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|211194082|gb|FL030609.1|FL030609
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|76016191|gb|DT943361.1|DT943361
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|76021196|gb|DT948366.1|DT948366
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|50330655|gb|CO525781.1|CO525781
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|74236588|gb|DT644502.1|DT644502
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|50332550|gb|CO527676.1|CO527676
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|50325227|gb|CO520353.1|CO520353
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|89757612|gb|DY687140.1|DY687140
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
EST: gi|76010861|gb|DT938031.1|DT938031
EST:     ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAG                         GTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG
genomic: ACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggc ... tgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGTGCGGATGCCGGCAGCTGGTTCCAAAGGGGCACCTAAAAACCCCAGTGAACTAAAAGATGACACAAGCTTGTCACGGGATGAAAAGCAGgttttttggcatttgcaaagattgatgtactttctgtgaatatgtacaactacttttgttatgtgtttcctcaaaattactggatcatcagctaagctgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT