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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcgtctctttctcagatgcctaatgagatgatcttgcataaaaaatgtgtcgtttacagtttgtcaacgtcgttcgttttagcaatttctatc...

Basic information

species Zea mays
transcript GRMZM2G144618_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144618_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g14580.1 (Oryza sativa), 5'ss of exon 2
AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttc-------gactcgtctctttctcagatgcctaatgagatgatcttgcataaaaaatgtgtcgtttacagtttgtcaacgtcgttcgttttagcaatttctatc
|| |||||||| |||||||||||||||||||| ||||||||||||       || | || || ||||    | |  |||  | |||| ||   |      |     ||||||    ||| |   |     || |||      ||||  
AGCCGGAAGGATGTGGAGGGGTCGCTCTTCGTTGTCAAGAGgttcgttccaggatttgtttccttcttgtgt-ctgaatttgctgattttagttttcggttac--tgtttac---ctgttag-atgaaaggtgttacacgcctctagt
















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|211507640|gb|FL212617.1|FL212617
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATNGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|71441642|gb|DR822692.1|DR822692
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|50322552|gb|CO517678.1|CO517678
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|211505290|gb|FL212613.1|FL212613
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATNGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|50322824|gb|CO517950.1|CO517950
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|71448550|gb|DR829600.1|DR829600
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|89761719|gb|DY689622.1|DY689622
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|71443863|gb|DR824913.1|DR824913
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|211507637|gb|FL212614.1|FL212614
EST:     AGACGGAAGGATGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCCAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|93012223|gb|EB637743.1|EB637743
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|211507639|gb|FL212616.1|FL212616
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATGGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|76286410|gb|DV025978.1|DV025978
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|149014053|gb|EE043578.2|EE043578
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|211507638|gb|FL212615.1|FL212615
EST:     AGACGGAAGGATGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCCAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
EST: gi|76017159|gb|DT944329.1|DT944329
EST:     AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAG                         GAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG
genomic: AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcg ... tttattgcagGAATGCTCAACCTAGATTCCAGTTCATTGTCATGAACCGCAGGAATACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACGGAAGGACGTGGAGGGGTCGCTCTTCGTCGTCAAGAGgttcgactcgtctctttctcagatgcctaatgagatgatcttgcataaaaaatgtgtcgtttacagtttgtcaacgtcgttcgttttagcaatttctatc

- - - - - - GTGGAG
- - - - - -  TGGAGG