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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCACCTTTGATTGCAAAGGAAACCATATATACAGCAACAACTGATGCAGCAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcatttaccaaatggttctttagctagagcagtaaactttagttatcttttttatttgctagagcactagttacagtaaatttcagtttcattcac...

Basic information

species Zea mays
transcript GRMZM2G039889_T06
intron # 4
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|78107919|gb|DV526337.1|DV526337
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|76910226|gb|DV163762.1|DV163762
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|76910227|gb|DV163763.1|DV163763
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGCTGCAAATA
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAGCTGCAAATA
EST: gi|50336508|gb|CO531634.1|CO531634
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|78123847|gb|DV542231.1|DV542231
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|78115266|gb|DV533654.1|DV533654
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|76016911|gb|DT944081.1|DT944081
EST:     TGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGGGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: TGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|71299499|gb|DR785760.1|DR785760
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|71326312|gb|DR799844.1|DR799844
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         AATGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|60400549|gb|DN233356.1|DN233356
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
EST: gi|71762950|gb|DR960887.1|DR960887
EST:     CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAA                         GGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG
genomic: CAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcattt ... catattgcagGGTGAAGTGGATTGCTCGTTTTATATGAAGACAGGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCACCTTTGATTGCAAAGGAAACCATATATACAGCAACAACTGATGCAGCAGATGCCCCGACCGAGGCGTGTAACGCAAAGGGGCTTCCTATAAGACAAgtatgcatttaccaaatggttctttagctagagcagtaaactttagttatcttttttatttgctagagcactagttacagtaaatttcagtttcattcac

- - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG