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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctataggcagaagctgtcaactatcctactacatttttttcaacatacgcttccctaaaattcgatataattaatgtattcatttttttttgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAGGAGGCTGCCTGTTTGTTAGCTGAGAAGGAAGACTGGCCTCCGCTCTATG

Basic information

species Zea mays
transcript GRMZM2G075488_T02
intron # 8
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|67042357|gb|CO468612.1|CO468612
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|149075977|gb|EE164546.2|EE164546
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTTTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|31998054|gb|CD661896.1|CD661896
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|60358578|gb|DN225551.1|DN225551
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|148995980|gb|EE035229.2|EE035229
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|211492404|gb|FL232704.1|FL232704
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|67011936|gb|CO440685.1|CO440685
EST:     ACCCTATTAAAGCTACAGAAGAAAGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|211175594|gb|FL456967.1|FL456967
EST:     MCCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAR                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG
EST: gi|148934530|gb|EC878572.2|EC878572
EST:     ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAG                         ATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTTTACGAGACCTAAAG
genomic: ACCCTATTAAAGCTACAGAAGAAGGCCGAGCTGTGTACTTTACTGGAGAGgtactcgttt ... tgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgcttccctaaaattcgatataattaatgtattcatttttttttgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAGGAGGCTGCCTGTTTGTTAGCTGAGAAGGAAGACTGGCCTCCGCTCTATG
                       aattaat  putative branch site (score: 3)
                                 ttcatttttttttgtt  putative PPT
          taaaattcgatataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctataggcagaagctgtcaactatcctactacatttttttcaacatacgcttccctaaaattcgatataattaatgtattcatttttttttgttacgcagATGGTGTTCCCTTGCATGTTCGATGACATCCCTGCTCTACGAGACCTAAAGGAGGCTGCCTGTTTGTTAGCTGAGAAGGAAGACTGGCCTCCGCTCTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA