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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgattaccaaaagataataaaaaaggacggtttttctctctctctctaaaatttgttgacatgttcaataacttgtcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAAGAACTACTGGAGGACACACATGAGAAAGAAGGCACAGGAGAGGAAGAGG

Basic information

species Zea mays
transcript GRMZM2G130149_T02
intron # 2
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|94475219|gb|EB704177.1|EB704177
EST:     CTCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|113702347|gb|EE679851.1|EE679851
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|78543921|gb|DV621419.1|DV621419
EST:     TAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: TAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|50337394|gb|CO532520.1|CO532520
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|9953044|gb|BE639627.1|BE639627
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|78104874|gb|DV523292.1|DV523292
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|211158151|gb|FL393698.1|FL393698
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTT
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTT
EST: gi|76911847|gb|DV164463.1|DV164463
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|67012428|gb|CO441177.1|CO441177
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|23357664|gb|BU645313.1|BU645313
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|211204239|gb|FL383408.1|FL383408
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACG
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACG
EST: gi|13558921|gb|BG550276.1|BG550276
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|37416590|gb|CF645947.1|CF645947
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCANGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|211279383|gb|FL428429.1|FL428429
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCA
EST: gi|71419155|gb|DR804670.1|DR804670
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|71317839|gb|DR795686.1|DR795686
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|20811250|gb|BQ295728.1|BQ295728
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|71308212|gb|DR790338.1|DR790338
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|32851249|gb|CD990930.1|CD990930
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|22473234|gb|BU037714.1|BU037714
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|211487871|gb|FL397199.1|FL397199
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGA
EST: gi|29576784|gb|CB616896.1|CB616896
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|71315567|gb|DR794388.1|DR794388
EST:     CACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|101401056|gb|EB822207.1|EB822207
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCCCGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|26457517|gb|CA829100.1|CA829100
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
EST: gi|76911849|gb|DV164464.1|DV164464
EST:     CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAG                         GTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA
genomic: CCCCATGAAGAGCGACTCATCCTAGAGCTGCACGCTCGGTGGGGAAACAGgtctgattac ... tcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctctctctctctaaaatttgttgacatgttcaataacttgtcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAAGAACTACTGGAGGACACACATGAGAAAGAAGGCACAGGAGAGGAAGAGG
                                   caataac  putative branch site (score: 2)
                                         cttgtcct  CT-rich tract
                taaaatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgattaccaaaagataataaaaaaggacggtttttctctctctctctaaaatttgttgacatgttcaataacttgtcctaaacagGTGGTCCAGGATAGCACGCCGCTTGCCAGGGCGCACTGACAATGAGATCAAGAACTACTGGAGGACACACATGAGAAAGAAGGCACAGGAGAGGAAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG