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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaaacaaacgcaagccccaacaacctatctgcttttggttaaactggcttgtgcatggttcaataattcttatcaactttttctctatattattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCGACCGTCCAAACCATCCTAGAATATGATTGGTGGACTGCGATTAAATTGC

Basic information

species Zea mays
transcript GRMZM2G101250_T02
intron # 19
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|211312443|gb|FL348211.1|FL348211
EST:     AATGTGCTACTACAACGTATAACAG                         TATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCG
genomic: AATGTGCTACTACAACGTATAACAGgtgctttctc ... attattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCG
EST: gi|113701052|gb|EE678556.1|EE678556
EST:     ATTCCTATTTTCTTCAGGCGCAAGTAATGTGCTACTACAACGTATAACAG                         TATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCG
genomic: ATTCCTATTTTCTTCAGGCGCAAGTAATGTGCTACTACAACGTATAACAGgtgctttctc ... attattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCG
EST: gi|166554660|gb|EG170288.1|EG170288
EST:     ATTCCTATTTTCTTCAGGCGCAAGTAATGTGCTACTACAACGTATAACAG                         TATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTG
genomic: ATTCCTATTTTCTTCAGGCGCAAGTAATGTGCTACTACAACGTATAACAGgtgctttctc ... attattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggcttgtgcatggttcaataattcttatcaactttttctctatattattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCGACCGTCCAAACCATCCTAGAATATGATTGGTGGACTGCGATTAAATTGC
                                 ctttttctctatatt  CT-rich tract
                  aataattcttatcaac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaaaacaaacgcaagccccaacaacctatctgcttttggttaaactggcttgtgcatggttcaataattcttatcaactttttctctatattattacagTATCTTATTTCCGAGCTACACACGAAGACTTGCACTTATACAGGTTGTTCGACCGTCCAAACCATCCTAGAATATGATTGGTGGACTGCGATTAAATTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA