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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaggattaaaaaaaagacaggcatgcaatgcacatctcatcagacagacgagaacctaacactgccttttcccacctgcctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTTCAGCCGGGCAAGAGCGAGATGTTCAATGTCGCGAACACGGCCGAGATCA

Basic information

species Zea mays
transcript GRMZM2G355636_T01
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|20802414|gb|BQ293464.1|BQ293464
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGCCGTC
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTC
EST: gi|211250045|gb|FL413628.1|FL413628
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGAGGTCGATCTGACTAACGGCGTT
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
EST: gi|14245637|gb|BG874219.1|BG874219
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
EST: gi|101387517|gb|EB815773.1|EB815773
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
EST: gi|78545086|gb|DV622584.1|DV622584
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGCCGTCGATCTGACTAACGGCGTT
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
EST: gi|78091057|gb|DV519431.1|DV519431
EST:     CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAG                         GTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT
genomic: CTGCAGCCTGTATTCGACATTCAGCATCCAGGAGGCCTCGGATGAGCCAGgtataaggat ... ctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcatcagacagacgagaacctaacactgccttttcccacctgcctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTTCAGCCGGGCAAGAGCGAGATGTTCAATGTCGCGAACACGGCCGAGATCA
                   acctaac  putative branch site (score: 2)
                              ccttttcccacctgcc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaggattaaaaaaaagacaggcatgcaatgcacatctcatcagacagacgagaacctaacactgccttttcccacctgcctcatctcagGTTGTGCGGGTGCTTGATAGTCTCGCCGACGTCGATCTGACTAACGGCGTTCAGCCGGGCAAGAGCGAGATGTTCAATGTCGCGAACACGGCCGAGATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA