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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacccttctctcctactggctcgtctcttcgatttgctggaggtgcagcttcttcgggttctcacggcactcgttcctgttggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTCGACCAGGCTACCTACGACAAGCTGCTCTCGGAGGTGCCCAAGTACAAGC

Basic information

species Zea mays
transcript GRMZM2G084868_T01
intron # 1
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|60397248|gb|DN230064.1|DN230064
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|76291500|gb|DV031068.1|DV031068
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|211248753|gb|FL461056.1|FL461056
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         ATGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGTGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|4776317|gb|AI665320.1|AI665320
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAANCAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|8930147|gb|BE224791.1|BE224791
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|14645944|gb|BI180133.1|BI180133
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCNAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|19821821|gb|BQ047845.1|BQ047845
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGG-GGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|88755661|gb|DY539802.1|DY539802
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|211431879|gb|FK960476.1|FK960476
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|67017923|gb|CO446672.1|CO446672
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|32934654|gb|CF039466.1|CF039466
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|87153276|gb|DY398065.1|DY398065
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|5439431|gb|AI820352.1|AI820352
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|37384641|gb|CF629410.1|CF629410
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGTTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|9794798|gb|BE553106.1|BE553106
EST:     GCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAANAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTT
genomic: GCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAA-AGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTT
EST: gi|37379740|gb|CF626625.1|CF626625
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|60395195|gb|DN228064.1|DN228064
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|5455870|gb|AI833560.1|AI833560
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|9733643|gb|BE512395.1|BE512395
EST:     CGCCGTCGTCGAAGCCGG-CAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|29945456|gb|CB815648.1|CB815648
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|19058453|gb|BM737120.1|BM737120
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGG-GGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|15590181|gb|BI674797.1|BI674797
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|29543869|gb|CB604249.1|CB604249
EST:     GCCGTCGTCGAAGCCGGCCAAGTACCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: GCCGTCGTCGAAGCCGGCCAAGT-CCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|28987644|gb|CB351737.1|CB351737
EST:     GGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: GGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|17921647|gb|BM259298.1|BM259298
EST:     GGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGG-GCTG-TC
genomic: GGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|9255168|gb|BE345636.1|BE345636
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAATGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|31558737|gb|CD527949.1|CD527949
EST:     GCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: GCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|29543622|gb|CB604002.1|CB604002
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGG-GGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|84980357|gb|DW530706.1|DW530706
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|161589886|gb|EY962673.1|EY962673
EST:     CGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|28987569|gb|CB351699.1|CB351699
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGCGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|166502763|gb|EG164293.1|EG164293
EST:     AAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: AAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|60345979|gb|DN212952.1|DN212952
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|29130417|gb|CB381121.1|CB381121
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGG-GGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGGAAAACAACGCGGTGCTGTT
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAA-GGTAAACAACGCGGTGCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggaggtgcagcttcttcgggttctcacggcactcgttcctgttggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTCGACCAGGCTACCTACGACAAGCTGCTCTCGGAGGTGCCCAAGTACAAGC
                      ttctcac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgacccttctctcctactggctcgtctcttcgatttgctggaggtgcagcttcttcgggttctcacggcactcgttcctgttggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTCGACCAGGCTACCTACGACAAGCTGCTCTCGGAGGTGCCCAAGTACAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT