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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCCTCGCCGCTCCCAGACCGGTCATGGTAGAGGCCAAGCTCGGGGAGATGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagacttccttctcgccggccgagggcaacatcctggtcgtgttgcaaatcctaatgctgataacctaataataacgagtgatgcctcgatcttctttatcag

Basic information

species Zea mays
transcript GRMZM2G179465_T03
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|211448859|gb|FK989628.1|FK989628
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTC--G                         -AGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450981|gb|FK989645.1|FK989645
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|44901027|gb|CK827572.1|CK827572
EST:     GTTGGTGGGAGTAGTTCTCAACAACCCTCAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: GTTGGTGGGAGTAGTTCTCAACAA-CCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450974|gb|FK989638.1|FK989638
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450977|gb|FK989641.1|FK989641
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450976|gb|FK989640.1|FK989640
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32808009|gb|CD960243.1|CD960243
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32810069|gb|CD962303.1|CD962303
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32805004|gb|CD957240.1|CD957240
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211448861|gb|FK989630.1|FK989630
EST:     TGTTGGTGGGANTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTSCATCCATCTTCATCACGGGCT
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCT
EST: gi|211450972|gb|FK989636.1|FK989636
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32810151|gb|CD962385.1|CD962385
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32807334|gb|CD959568.1|CD959568
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|87156349|gb|DY401138.1|DY401138
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|32792565|gb|CD944801.1|CD944801
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211165894|gb|FL257812.1|FL257812
EST:     ATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: ATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450978|gb|FK989642.1|FK989642
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|26559035|gb|CA831270.1|CA831270
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|60401440|gb|DN234247.1|DN234247
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211202951|gb|FL437985.1|FL437985
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|60398513|gb|DN231329.1|DN231329
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211448863|gb|FK989632.1|FK989632
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
EST: gi|211450982|gb|FK989646.1|FK989646
EST:     TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAG                         AAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG
genomic: TGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagact ... tctttatcagAAGAACCTGTCCCTCAGCCACCTCTCCATCCATCTTCATCACGGGCTGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTCCTCGCCGCTCCCAGACCGGTCATGGTAGAGGCCAAGCTCGGGGAGATGTTGGTGGGAGTAGTTCTCAACAACCTGAAATCGTCCATGCCGCTCGAGgtgagagacttccttctcgccggccgagggcaacatcctggtcgtgttgcaaatcctaatgctgataacctaataataacgagtgatgcctcgatcttctttatcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG