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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtagcagcttcattgcaaatatggatagtctagagattgtgtgattcactgattgttaacctttgagtttgaatggtatggttctatgtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTTCCCGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G28480.1
intron # 4
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|86032585|gb|DR328338.1|DR328338
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032582|gb|DR328335.1|DR328335
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032583|gb|DR328336.1|DR328336
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032569|gb|DR328322.1|DR328322
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032587|gb|DR328340.1|DR328340
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|116452355|gb|EG494947.1|EG494947
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032572|gb|DR328325.1|DR328325
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGA
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGA
EST: gi|86032563|gb|DR328316.1|DR328316
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032580|gb|DR328333.1|DR328333
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032588|gb|DR328341.1|DR328341
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032570|gb|DR328323.1|DR328323
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032575|gb|DR328328.1|DR328328
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032564|gb|DR328317.1|DR328317
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GWTGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCT
EST: gi|86032578|gb|DR328331.1|DR328331
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032568|gb|DR328321.1|DR328321
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032584|gb|DR328337.1|DR328337
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAA
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAA
EST: gi|86032577|gb|DR328330.1|DR328330
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032576|gb|DR328329.1|DR328329
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032566|gb|DR328319.1|DR328319
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|124783579|gb|EH873411.1|EH873411
EST:     GAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: GAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
EST: gi|86032589|gb|DR328342.1|DR328342
EST:     TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAG                         GATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT
genomic: TTGAGAGTGAAGTACGCACTAGTTCTGGAATGTTTCTCTCCAAACGACAGgttagttaat ... gtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcactgattgttaacctttgagtttgaatggtatggttctatgtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTTCCCGAAG
           tgttaac  putative branch site (score: 2)
         attgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagtagcagcttcattgcaaatatggatagtctagagattgtgtgattcactgattgttaacctttgagtttgaatggtatggttctatgtatgtgtagGATGATATAGTAAGTAATGTGGAGGCAAAACTTGCTGCGTGGACCTTTCTTCCCGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - -gcaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtatgg