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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaattttttttctcattttttcttcttaaaattaagtatcattctacttatgaatgatgttgtgctttaccactcatgcatgctgctctgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGCGCGTTCTACACGACG

Basic information

species Zea mays
transcript GRMZM2G011078_T01
intron # 1
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|76927248|gb|DV171197.1|DV171197
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|76280658|gb|DV020226.1|DV020226
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|37418302|gb|CF646819.1|CF646819
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|71440939|gb|DR821989.1|DR821989
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|76282431|gb|DV021999.1|DV021999
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|78092064|gb|DV520438.1|DV520438
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|89760517|gb|DY688893.1|DY688893
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|76913839|gb|DV165275.1|DV165275
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCCCG                         GACCAAGCTAAGAGAGGAGGATCCACTGCTCA
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCA
EST: gi|78080153|gb|DV508565.1|DV508565
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC
EST: gi|76928466|gb|DV171634.1|DV171634
EST:     ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCG                         GACCAAGCTAAGAGAGGAGGATCGAGTGCTCAGTCCGGCTACTCTGGTGGC
genomic: ACGACAACCCCTTCGAGGAGGGCGGCGCCGACGAGGTCAACCCTTTCGCGgtaagccgta ... tgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacttatgaatgatgttgtgctttaccactcatgcatgctgctctgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGCGCGTTCTACACGACG
                                       ctgctctgttctcc  CT-rich tract
     tatgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaaattttttttctcattttttcttcttaaaattaagtatcattctacttatgaatgatgttgtgctttaccactcatgcatgctgctctgttctccagGACCAAGCTAAGAGAGGAGGATCGACTGCTCAGTCCGGCTACTCTGGTGGCGCGTTCTACACGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctc