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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTGCGCCCGAACACTTCGAGCTCACCCGCAACCTCCTCCGGGAAGCGCGATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaaccctaacttgcttggggatggatctgaggggagtttccctctagtcatttgctagtgattccttcgctatcccatccatccatgtttgcggt...

Basic information

species Zea mays
transcript GRMZM2G114220_T01
intron # 1
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|211392505|gb|FL156794.1|FL156794
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211389874|gb|FL156779.1|FL156779
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211389876|gb|FL156781.1|FL156781
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         --G-TTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211389878|gb|FL156783.1|FL156783
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392499|gb|FL156788.1|FL156788
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392496|gb|FL156785.1|FL156785
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211389879|gb|FL156784.1|FL156784
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|50338446|gb|CO533572.1|CO533572
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392507|gb|FL156796.1|FL156796
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392498|gb|FL156787.1|FL156787
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|76909136|gb|DV163240.1|DV163240
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|6637070|gb|AW261342.1|AW261342
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAACCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392509|gb|FL156798.1|FL156798
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAG
EST: gi|71417924|gb|DR804257.1|DR804257
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392504|gb|FL156793.1|FL156793
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392503|gb|FL156792.1|FL156792
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|91049005|gb|EB159423.1|EB159423
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|32859779|gb|CD999460.1|CD999460
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|32862738|gb|CF002420.1|CF002420
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211395124|gb|FL156801.1|FL156801
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392510|gb|FL156799.1|FL156799
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211395123|gb|FL156800.1|FL156800
EST:     GDNCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392502|gb|FL156791.1|FL156791
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211389877|gb|FL156782.1|FL156782
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|91873355|gb|EB403312.1|EB403312
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|14242735|gb|BG840580.2|BG840580
EST:     CAAGATTCCAAGCTCTTCTGTCA                         CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: CAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|213183590|gb|FM196389.1|FM196389
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
EST: gi|211392508|gb|FL156797.1|FL156797
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCA                         --G-TTGAGGGAAGTTGAAGCAAAAGTCTAA-CAAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAA-TG
EST: gi|93015584|gb|EB641104.1|EB641104
EST:     GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGT--                         CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG
genomic: GATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaacc ... ttgttcatagCAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTGCGCCCGAACACTTCGAGCTCACCCGCAACCTCCTCCGGGAAGCGCGATCGCCGTCTCGAAGGAGCTGAAATCCAAGATTCCAAGCTCTTCTGTCAgtaaggaaccctaacttgcttggggatggatctgaggggagtttccctctagtcatttgctagtgattccttcgctatcccatccatccatgtttgcggt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT