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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggtttgggttgggggttttgcttgcgctcgtatgcggtctggctctgtcctgattctgctcgattggtccag

Basic information

species Zea mays
transcript GRMZM2G011173_T02
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|91050350|gb|EB160768.1|EB160768
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|19436293|gb|BM952703.1|BM952703
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|89248124|gb|DY619910.1|DY619910
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|71419808|gb|DR804903.1|DR804903
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|71435432|gb|DR816482.1|DR816482
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|71320866|gb|DR797150.1|DR797150
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|76013659|gb|DT940829.1|DT940829
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|71313019|gb|DR793034.1|DR793034
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|211502577|gb|FL311927.1|FL311927
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|211145073|gb|FL314893.1|FL314893
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|67034610|gb|CO463160.1|CO463160
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|78091120|gb|DV519494.1|DV519494
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|74241849|gb|DT649763.1|DT649763
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|93016793|gb|EB642313.1|EB642313
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|71768256|gb|DR966193.1|DR966193
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|94477701|gb|EB706659.1|EB706659
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|101382184|gb|EB813148.1|EB813148
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
EST: gi|87153649|gb|DY398438.1|DY398438
EST:     AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAG                         GAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
genomic: AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggttt ... attggtccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCCGGAAGGACGTCGAGGGGTCGCTGTTCGTCGTCAAGAGgtgagggtttgggttgggggttttgcttgcgctcgtatgcggtctggctctgtcctgattctgctcgattggtccag

- - - - - - - - - - -  GCTGTT