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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCGATCACATCGAAAATGTAGTAGAGCAACTGCAGAATGTTCTTGACAAGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttcccatagaccagtttttctagcaacttaggatatataattgaagcactgatcatagttcagtaaatcatattatgtattatttatgtgaaccatacttgtttag

Basic information

species Arabidopsis thaliana
transcript AT3G54530.1
intron # 2
splice site 5'
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|116440437|gb|EG483029.1|EG483029
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116435779|gb|EG478371.1|EG478371
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
EST: gi|116440435|gb|EG483027.1|EG483027
EST:     AGCTGACTACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440433|gb|EG483025.1|EG483025
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440439|gb|EG483031.1|EG483031
EST:     AGTTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440447|gb|EG483039.1|EG483039
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAGACACCAACAAAC                         GGTAAACAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440446|gb|EG483038.1|EG483038
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440428|gb|EG483020.1|EG483020
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440451|gb|EG483043.1|EG483043
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAGACACCAACAAAC                         GGTAAACAATTTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATT-CTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440440|gb|EG483032.1|EG483032
EST:     AGTTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAAATTTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAA-TT-CTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116435774|gb|EG478366.1|EG478366
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTTTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
EST: gi|116440442|gb|EG483034.1|EG483034
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440444|gb|EG483036.1|EG483036
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116440436|gb|EG483028.1|EG483028
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCA
EST: gi|116435775|gb|EG478367.1|EG478367
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
EST: gi|116435776|gb|EG478368.1|EG478368
EST:     AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAAC                         GGTAAGCAATTTTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT
genomic: AGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttccc ... acttgtttagGGTAAGCAATTCTTCTTGACGCACGGTTGTAAAAGCTTGGCACAAGAAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCGATCACATCGAAAATGTAGTAGAGCAACTGCAGAATGTTCTTGACAAGCTGAATACAGAAGAAGCATCACAAAGAGGAAGAGAAACACCAACAAACgtatgttcccatagaccagtttttctagcaacttaggatatataattgaagcactgatcatagttcagtaaatcatattatgtattatttatgtgaaccatacttgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA