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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTCCCAGAAACGAGAACAGAACCAAATAATGAAAGTTTATCGACCCGTTTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttcttggcattgaaatgctaatcttgaactgtgtggtacatttcaatcatctcgagttttttttttttttgaaattttggtgcctctattccttt...

Basic information

species Zea mays
transcript GRMZM5G834205_T03
intron # 5
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|101391432|gb|EB817651.1|EB817651
EST:     TGATTGAAAGCTCAACAGGAAGGGCACACTCAGCCTGTTCCGGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TGACTG-AAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|78077690|gb|DV506124.1|DV506124
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|149050347|gb|EE155591.2|EE155591
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|84970062|gb|DW468434.1|DW468434
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|37375076|gb|CF623952.1|CF623952
EST:     CAGGAAGTGCATACTCAGCCTGTTCCT-ATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: CAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|71761883|gb|DR959820.1|DR959820
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|86472430|gb|DY238800.1|DY238800
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|48690727|gb|CO049262.1|CO049262
EST:     GCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: GCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|50325059|gb|CO520185.1|CO520185
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|37394180|gb|CF634361.1|CF634361
EST:     TTGACTGAAGCTCAACAGGAAGTGCATACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|76291817|gb|DV031385.1|DV031385
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
EST: gi|32837204|gb|CD976882.1|CD976882
EST:     TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAG                         TATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA
genomic: TTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttctt ... gttttttcagTATAGTCCAGAAAGCCTCTAGTGTCATGGAAGTATTGAGGGATGTGCTTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGTCCCAGAAACGAGAACAGAACCAAATAATGAAAGTTTATCGACCCGTTTGACTGAAGCTCAACAGGAAGTGCACACTCAGCCTGTTCCTGATGCAAGgtactttcttggcattgaaatgctaatcttgaactgtgtggtacatttcaatcatctcgagttttttttttttttgaaattttggtgcctctattccttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA