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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTTCTACACCCGCCGCCGCCACTCGTTGCAGCCTCTCTACCTCTACCTACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgccttcttccccggctccctatgtcccgtcgcgcgcgggccaccttgctgcccctgttgattcttgcgtgggttctatatgctgtaatccatc...

Basic information

species Zea mays
transcript GRMZM2G009412_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|211408817|gb|FK968094.1|FK968094
EST:     ACCGGAGCAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|4646348|gb|AI621678.1|AI621678
EST:     ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|211413907|gb|FK968114.1|FK968114
EST:     ACCGGAGCAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTRRGGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAA
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCT-AAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAA
EST: gi|32913975|gb|CF018787.1|CF018787
EST:     GCACGAGCCCTTCCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: GCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|116826622|gb|EC870429.1|EC870429
EST:     ACTGGAGTATGGAGCACGCCGCAGGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|211511551|gb|FL285070.1|FL285070
EST:     ACCGGAGCAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|211406246|gb|FK968073.1|FK968073
EST:     ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|32863442|gb|CF003124.1|CF003124
EST:     ACCGGAGCAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|211413913|gb|FK968120.1|FK968120
EST:     ACCGGAGCAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATG                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
EST: gi|116822004|gb|EC865370.1|EC865370
EST:     ACTGGAGTACGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAAT-                         GTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG
genomic: ACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgcc ... tgttatatagGTGAACGTTCCTAAGACCAAGAAGACCTACTGCAAGAACAAGGAGTGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCTTCTACACCCGCCGCCGCCACTCGTTGCAGCCTCTCTACCTCTACCTACTGGAGTAGGGAGCACGCCGCACGAGCCCTTTCCGCCGCCGCCAAAATGgtaagccgccttcttccccggctccctatgtcccgtcgcgcgcgggccaccttgctgcccctgttgattcttgcgtgggttctatatgctgtaatccatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA