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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCGTGAGGGTCGCCCCCAGGGGATCTCGAGACGTCCGTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttggaattgcgatgtttgtttgcttcacagcctttttccttctaaagttttgctctgacgaggtctacttatccttttgctctatatttag

Basic information

species Zea mays
transcript GRMZM2G095727_T03
intron # 2
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|67028242|gb|CO456991.1|CO456991
EST:     GTTTCCAAGAGTGGACCGGCTCGGAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTGGGGTTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|78086698|gb|DV515091.1|DV515091
EST:     GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|31441071|gb|CD510502.1|CD510502
EST:     GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|89252032|gb|DY623818.1|DY623818
EST:     GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|94478976|gb|EB707934.1|EB707934
EST:     GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|71432179|gb|DR813229.1|DR813229
EST:     GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT
EST: gi|211378749|gb|FL130659.1|FL130659
EST:     GTTTCCAAGAGTGGACCGGCTCGGAGGCGCTGCTGTTACCTTGGGTGGAG                         CTCGGACCTGCGGATCAGTGGGATTCTCAAGGGAGACGGTGGTTTCTGATT
genomic: GTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttgga ... ctatatttagCTCGGACCTGCGGATCAGTTGGATTCTCAAGGGAGACGGTGGTTTCTGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTCGTGAGGGTCGCCCCCAGGGGATCTCGAGACGTCCGTTTCCAAGAGTGGACCGGCTCGCAGGCGCTGCTGTTACCTTGGGTGGAGgcaagttggaattgcgatgtttgtttgcttcacagcctttttccttctaaagttttgctctgacgaggtctacttatccttttgctctatatttag

- - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG