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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccttatgtcttgattgatatgcaattatttcatcatttctcgttgatgatgactgtaatttctgttagcttttggagtaatgaatataattgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAAGAGACAGTTTCAGTAAATGGGAACGAGGGTGAGGAACAGCAGG

Basic information

species Zea mays
transcript GRMZM2G095348_T02
intron # 22
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|60345624|gb|DN212597.1|DN212597
EST:     CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACA-G--------                         GCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
genomic: CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACAGGTATCTCATgtgcattctg ... ttgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
EST: gi|32846872|gb|CD986553.1|CD986553
EST:     TGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACA-G--------                         GCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
genomic: TGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACAGGTATCTCATgtgcattctg ... ttgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
EST: gi|60347180|gb|DN214153.1|DN214153
EST:     CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACA-G--------                         GCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
genomic: CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACAGGTATCTCATgtgcattctg ... ttgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
EST: gi|211347064|gb|FK984260.1|FK984260
EST:     CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACA-G--------                         GCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
genomic: CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACAGGTATCTCATgtgcattctg ... ttgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
EST: gi|71443012|gb|DR824062.1|DR824062
EST:     CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACA-G--------                         GCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA
genomic: CTGAAGATGCAGCTGAGGAAAATGGAGAACCTGATCAACAGGTATCTCATgtgcattctg ... ttgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgatgactgtaatttctgttagcttttggagtaatgaatataattgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAAGAGACAGTTTCAGTAAATGGGAACGAGGGTGAGGAACAGCAGG
 cgttgat  putative branch site (score: 5)
                                             ttgttctt  putative PPT
                                 taatgaatataattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccttatgtcttgattgatatgcaattatttcatcatttctcgttgatgatgactgtaatttctgttagcttttggagtaatgaatataattgttcttagGCATCGGAAGAGAAGGAAATGCATAACACAGATGATGCTGATGAACATGAAGAGACAGTTTCAGTAAATGGGAACGAGGGTGAGGAACAGCAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA