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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatcgtcggttactgttgctgttactgtcagtgcggatgtcattccgttacctcgttgacgcccgctcggctgctgaaccaatgttgtgggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAGATGGGCACCGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTA

Basic information

species Zea mays
transcript GRMZM2G052546_T07
intron # 3
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|148952817|gb|EC898809.2|EC898809
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|148970824|gb|EE021591.2|EE021591
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|148967268|gb|EE018472.2|EE018472
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|15427195|gb|BI543017.1|BI543017
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|76290045|gb|DV029613.1|DV029613
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|21621474|gb|BQ619480.1|BQ619480
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|149081546|gb|EE170685.2|EE170685
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|71435430|gb|DR816480.1|DR816480
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|91052216|gb|EB162634.1|EB162634
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAAAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|211478786|gb|FL377818.1|FL377818
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|76914764|gb|DV165677.1|DV165677
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|211266638|gb|FL405762.1|FL405762
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|74234762|gb|DT642676.1|DT642676
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|211183157|gb|FL428740.1|FL428740
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
EST: gi|148934585|gb|EC878634.2|EC878634
EST:     GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACT                         TTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG
genomic: GCGATGGTCCGCGGCGGCAGTCGCCGATCAAACACCGTCAAAACTgtaagcatta ... gggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgttacctcgttgacgcccgctcggctgctgaaccaatgttgtgggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAGATGGGCACCGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTA
          cgttgac  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaatcgtcggttactgttgctgttactgtcagtgcggatgtcattccgttacctcgttgacgcccgctcggctgctgaaccaatgttgtgggttgccagTTGCAGGCCCCTGGGGCGTCCACTTCCGGTGCCGAGAGCAGCGCCGTGGAGATGGGCACCGAGAAGTCCGAAGTGTACAGCACTAACATGACGCAGGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - gttgctg
- - - - - - - - - - - - - - - - - gcggatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgttgt