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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttacctatatagcttcctcactgttatgcacttattgctgttccgctttgtgactactagttatttagtcagctataacatgtttggtcttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGATGGGTGGTGTGCTCTCTCTTTTAGCTTGGTGATCATCTGAAAAAAGGAA

Basic information

species Zea mays
transcript GRMZM2G449355_T02
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|33285678|gb|CF075473.1|CF075473
EST:     GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTG                         GTTACTCCCACAGNGAGGGTAACTCGAATAACTGTGAGTGCTACTCTGAGA
genomic: GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTGgtgagtccgc ... cttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGA
EST: gi|211384520|gb|FL378682.1|FL378682
EST:     GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTG                         GTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTCTGAGA
genomic: GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTGgtgagtccgc ... cttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGA
EST: gi|211539119|gb|FL390806.1|FL390806
EST:     GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTG                         GTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTCTGAGA
genomic: GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTGgtgagtccgc ... cttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGA
EST: gi|30704456|gb|CD058530.1|CD058530
EST:     GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGCG                         GTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGA
genomic: GCGGAGATCCATCCGTTGGGGCGTGGATTCAGTCCCTTCCCTTCTCGGTGgtgagtccgc ... cttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctttgtgactactagttatttagtcagctataacatgtttggtcttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGATGGGTGGTGTGCTCTCTCTTTTAGCTTGGTGATCATCTGAAAAAAGGAA
                             ctataac  putative branch site (score: 3)
                                            tcttcctgc  putative PPT
              tagttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttacctatatagcttcctcactgttatgcacttattgctgttccgctttgtgactactagttatttagtcagctataacatgtttggtcttcctgcagGTTACTCCCACAGTGAGGGTAACTCGAATAACTGTGAGTGCTACTGTGAGATGGGTGGTGTGCTCTCTCTTTTAGCTTGGTGATCATCTGAAAAAAGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - tatgcac
- - - - - - - - - - - - - - - - - -attgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgttt