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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgggatattcgcatgaataatgaattgtctctgcatggtcctcgatttgaatctgaggtgaaacttaaatctttttttgcttgcttgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTTGAGGAGATGGATGCCGACTAAGAGACACGATGATTTGCCCAAACTTGGT

Basic information

species Zea mays
transcript GRMZM2G008623_T01
intron # 10
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|91049728|gb|EB160146.1|EB160146
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAG                         GT-CCAAATGAACTGTGGGAGCATGCCAAAGCTGC
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGC
EST: gi|22491453|gb|BU051376.1|BU051376
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAG                         GTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
EST: gi|78106192|gb|DV524610.1|DV524610
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAG                         GTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
EST: gi|6342734|gb|AW165558.1|AW165558
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCCCCAGCATCAGAAG                         GTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
EST: gi|93284361|gb|EB676625.1|EB676625
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCCCCAGCATCAGAAG                         GTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTT
EST: gi|78106193|gb|DV524611.1|DV524611
EST:     AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAG                         GTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCT
genomic: AGTTGGAGTTGAGCTGGATCTGCGATGAATCGAACCACCAGCATCAGAAGgtactgggat ... tgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgatttgaatctgaggtgaaacttaaatctttttttgcttgcttgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTTGAGGAGATGGATGCCGACTAAGAGACACGATGATTTGCCCAAACTTGGT
                             tctttttttgcttgct  CT-rich tract
                    aaacttaaatcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgggatattcgcatgaataatgaattgtctctgcatggtcctcgatttgaatctgaggtgaaacttaaatctttttttgcttgcttgccatgcagGTTCCAAATGAACTGTTGGAGCATGCCAAAGCTGCTGCCCAGGCTGCTCTTGAGGAGATGGATGCCGACTAAGAGACACGATGATTTGCCCAAACTTGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA