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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacacagttgcagaaccaaatttagtttggttttttttttgggattttccattcattttgtcttactaatcctggtggttcgttctggcattaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGCAGAAGAGGTCAACACTATAGGCAGTTAGGCCACTAGCAAAACAGTTCAA

Basic information

species Zea mays
transcript GRMZM2G074024_T02
intron # 8
splice site 3'
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|71420796|gb|DR805185.1|DR805185
EST:     GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|78113044|gb|DV531438.1|DV531438
EST:     GGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|31611841|gb|CD568463.1|CD568463
EST:     GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|32870804|gb|CF010486.1|CF010486
EST:     GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|213183112|gb|FM188954.1|FM188954
EST:     GAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|76021287|gb|DT948457.1|DT948457
EST:     GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|40337469|gb|CK371539.1|CK371539
EST:     GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
EST: gi|71596102|gb|DR906853.1|DR906853
EST:     GCATCGCGGACTGGTGCAGATGCCTTGGCACGCTTGTGCGAGAAAGTAAG                         GGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC
genomic: GCATCGCGGACTGGTGCGGATGCCTTGGCACGCTTGTGCGAGAAAGTAAGgtatgcgcac ... attaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccattcattttgtcttactaatcctggtggttcgttctggcattaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGCAGAAGAGGTCAACACTATAGGCAGTTAGGCCACTAGCAAAACAGTTCAA
                   tactaat  putative branch site (score: 1)
      attcatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaacacagttgcagaaccaaatttagtttggttttttttttgggattttccattcattttgtcttactaatcctggtggttcgttctggcattaccacagGGAGCATTTGGATAAGGAAGGAGAATGTGAATTCCTGGAAAAGCAAGTGGCAGAAGAGGTCAACACTATAGGCAGTTAGGCCACTAGCAAAACAGTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG