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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctttgtcatgtctgtgtgagcaactgagcatgcacaaggggattcacacaactaatttgactattggtgcatccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACGATGGAGAACATCCTCACCCAGCTCAAGAAAGAGATGGCTGCCTCGCAGA

Basic information

species Zea mays
transcript GRMZM2G071010_T01
intron # 3
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|89756017|gb|DY686217.1|DY686217
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|91874027|gb|EB403984.1|EB403984
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|33092413|gb|CF052407.1|CF052407
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCCCGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|32805334|gb|CD957570.1|CD957570
EST:     TAATTACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: TAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|9733380|gb|BE512237.1|BE512237
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211058470|gb|FL105755.1|FL105755
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTTGCTAGCGAA
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTT-GCTAGCGAA
EST: gi|93013912|gb|EB639432.1|EB639432
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211435244|gb|FL105634.1|FL105634
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACAC
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTT-GGTTTGCTAGCGAACTGGCAGCGGGACTACAC
EST: gi|211435250|gb|FL105640.1|FL105640
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTT-GCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|15554192|gb|BI644190.1|BI644190
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGNGAAGTTTGGNTTTGCTTAGCNNGAACTGGCAGCGGGACT
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAG-GAAGTTTGG-TTTGCT-AGC--GAACTGGCAGCGGGACT
EST: gi|211432637|gb|FL105618.1|FL105618
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|213192471|gb|FM190893.1|FM190893
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211052550|gb|FL105735.1|FL105735
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCCAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCNGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211052549|gb|FL105734.1|FL105734
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACAC
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAA-GTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACAC
EST: gi|32857652|gb|CD997333.1|CD997333
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211061440|gb|FL105771.1|FL105771
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|111433965|gb|EE298001.1|EE298001
EST:     AATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAAGAAAGTTTGGTTTTGCTAGCCGAAACTGGCAGCGGG
genomic: A-TTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAA-GTTTGGTTT-GCTAGC-GAA-CTGGCAGCGGG
EST: gi|32908045|gb|CF012858.1|CF012858
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|78081380|gb|DV509792.1|DV509792
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|5650118|gb|AI920478.1|AI920478
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCNCGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGGCTACNCG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|67042401|gb|CO468656.1|CO468656
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211058481|gb|FL105766.1|FL105766
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|9733381|gb|BE512238.1|BE512238
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|116829440|gb|EC867966.1|EC867966
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|5895802|gb|AW037048.1|AW037048
EST:     AACATGACATGCGTTAATCACGAGACAGGAGTG                         GGTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: AACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211043655|gb|FL105679.1|FL105679
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|32851339|gb|CD991020.1|CD991020
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GNTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|211046627|gb|FL105703.1|FL105703
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
EST: gi|32908043|gb|CF012856.1|CF012856
EST:     GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATG                         GTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG
genomic: GATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgtaatctttg ... atccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcatgcacaaggggattcacacaactaatttgactattggtgcatccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACGATGGAGAACATCCTCACCCAGCTCAAGAAAGAGATGGCTGCCTCGCAGA
                        aactaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatctttgtcatgtctgtgtgagcaactgagcatgcacaaggggattcacacaactaatttgactattggtgcatccgtgtagGTTGATCCAAGGAAGTTTGGTTTGCTAGCGAACTGGCAGCGGGACTACACGATGGAGAACATCCTCACCCAGCTCAAGAAAGAGATGGCTGCCTCGCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG