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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGCATGGATGGAACGCCACCTGCTTACCACTTGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaacatcgtctatgctaccatttgaaattcgaaagcacatattagtaaggactcccgctttttatcttggcccttgcttaaacttgtacacatgattcatgtcgttcctattttaatgtacattattattacacatatgcgcgcgcacacacacacag

Basic information

species Zea mays
transcript GRMZM2G164134_T01
intron # 2
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|211185059|gb|FL063081.1|FL063081
EST:     TGGATCCTGGCTCCGGAGCNGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGG-AGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTC
EST: gi|211065990|gb|FL060697.1|FL060697
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|74238314|gb|DT646228.1|DT646228
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211187456|gb|FL063085.1|FL063085
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211065986|gb|FL060693.1|FL060693
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|50332588|gb|CO527714.1|CO527714
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211187457|gb|FL063086.1|FL063086
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCCGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|88755784|gb|DY539925.1|DY539925
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211065991|gb|FL060698.1|FL060698
EST:     TGGATCCTGGCTCCCGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|40334415|gb|CK368485.1|CK368485
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211187459|gb|FL063088.1|FL063088
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
EST: gi|211185057|gb|FL063079.1|FL063079
EST:     TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAG                         GGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC
genomic: TGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaac ... acacacacagGGAGGTGCGTGGTGCAACAGCGCCAAGACATGCCGGCTCACCAGGAGCTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGCATGGATGGAACGCCACCTGCTTACCACTTGGATCCTGGCTCCGGAGCGGGCAGCAGAAGCTGGATTGTGAACTTAGAGgtcagttaacatcgtctatgctaccatttgaaattcgaaagcacatattagtaaggactcccgctttttatcttggcccttgcttaaacttgtacacatgattcatgtcgttcctattttaatgtacattattattacacatatgcgcgcgcacacacacacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA