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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

acaggttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATTCCAGTACGCATTCCAGATAATTGATGCTGGGTTATGGCTATGTAACTAG

Basic information

species Zea mays
transcript GRMZM2G006468_T03
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|60396153|gb|DN229022.1|DN229022
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|37426214|gb|CF650858.1|CF650858
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|33100890|gb|CF060850.1|CF060850
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGTGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|13178340|gb|BG349598.1|BG349598
EST:     AAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: AAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|113655660|gb|DW809180.1|DW809180
EST:     CGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: CGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|14244855|gb|BG842793.2|BG842793
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|16925921|gb|BM078989.1|BM078989
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|76010925|gb|DT938095.1|DT938095
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|16379972|gb|BI993236.1|BI993236
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGATCTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|14243138|gb|BG840841.2|BG840841
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|116813437|gb|EC855888.1|EC855888
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATCAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|60353604|gb|DN220577.1|DN220577
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|211186706|gb|FL252851.1|FL252851
EST:     GGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: GGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAA-CTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|71774336|gb|DR972214.1|DR972214
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|13382144|gb|BG458819.1|BG458819
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|60346391|gb|DN213364.1|DN213364
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTTTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTTTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|89755425|gb|DY685846.1|DY685846
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTTTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|33100633|gb|CF060593.1|CF060593
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|18650378|gb|BM499197.1|BM499197
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAGCTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCT-AATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|211436290|gb|FL481825.1|FL481825
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|28984501|gb|BQ539125.2|BQ539125
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAAAGATGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|60358728|gb|DN225701.1|DN225701
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|60353656|gb|DN220629.1|DN220629
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAAATGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|33102029|gb|CF061989.1|CF061989
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAAT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGC-ATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAAT
EST: gi|13178561|gb|BG349819.1|BG349819
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|13177701|gb|BG349130.1|BG349130
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|13177698|gb|BG349129.1|BG349129
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|211507463|gb|FL431647.1|FL431647
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|211505179|gb|FL436188.1|FL436188
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT
EST: gi|16377885|gb|BI992166.1|BI992166
EST:     TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTG                         ACAGCGTTGCATGTCTGGATGGAGTAAATAAAGATGATGCCCAGCTGAATT
genomic: TGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaa ... ataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATTCCAGTACGCATTCCAGATAATTGATGCTGGGTTATGGCTATGTAACTAG
                                           tgataac  putative branch site (score: 2)
                                                 ctcct  CT-rich tract
              tttttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaggttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaACAGCGTTGCATGTCTGGATGGTGTAAATAAAGATGATGCCCAGCTGAATTCCAGTACGCATTCCAGATAATTGATGCTGGGTTATGGCTATGTAACTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG