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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttgttcaccgttgaattctcaatttggtaatttaacccgaaatgtatcgaattcttacaaatgttttcaaatttttcgtctttggaattggattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCGAAGCTGTGTGATCGAAACTTCGGTGTTGGTGCCGATGGAGTGATTTTTG

Basic information

species Arabidopsis thaliana
transcript AT3G53580.1
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|86065675|gb|DR361432.1|DR361432
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065682|gb|DR361439.1|DR361439
EST:     GAGTTCTTCACTTTGTGAAATACCATAGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065693|gb|DR361450.1|DR361450
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065698|gb|DR361455.1|DR361455
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065695|gb|DR361452.1|DR361452
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGSAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065688|gb|DR361445.1|DR361445
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065702|gb|DR361459.1|DR361459
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065672|gb|DR361429.1|DR361429
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065700|gb|DR361457.1|DR361457
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065704|gb|DR361461.1|DR361461
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86060661|gb|DR356418.1|DR356418
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065689|gb|DR361446.1|DR361446
EST:     GAGTTCTTCACTTTGTGAAATACCATAGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065673|gb|DR361430.1|DR361430
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065690|gb|DR361447.1|DR361447
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|164195423|gb|EL983350.1|EL983350
EST:     TACCATGGCCT-GGCAATGACTTCATTTTG                         G-CGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: TACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065697|gb|DR361454.1|DR361454
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065677|gb|DR361434.1|DR361434
EST:     GAGTTCTTCACTTTGTAAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065706|gb|DR361463.1|DR361463
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065694|gb|DR361451.1|DR361451
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTSATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065699|gb|DR361456.1|DR361456
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065696|gb|DR361453.1|DR361453
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065683|gb|DR361440.1|DR361440
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065671|gb|DR361428.1|DR361428
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065691|gb|DR361448.1|DR361448
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065687|gb|DR361444.1|DR361444
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAWSCAGGCGGC
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAA-CAGGCGGC
EST: gi|125119947|gb|EL167915.1|EL167915
EST:     AGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCG
genomic: AGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCA-TTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCG
EST: gi|86065679|gb|DR361436.1|DR361436
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065685|gb|DR361442.1|DR361442
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065692|gb|DR361449.1|DR361449
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
EST: gi|86065680|gb|DR361437.1|DR361437
EST:     GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTG                         GTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG
genomic: GAGTTCTTCACTTTGTGAAATACCATGGCCTCGGCAATGACTTCATTTTGgtacttttgt ... gattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgaattcttacaaatgttttcaaatttttcgtctttggaattggattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCGAAGCTGTGTGATCGAAACTTCGGTGTTGGTGCCGATGGAGTGATTTTTG
      ttcttac  putative branch site (score: 2)
         ttacaaatgttttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttttgttcaccgttgaattctcaatttggtaatttaacccgaaatgtatcgaattcttacaaatgttttcaaatttttcgtctttggaattggattttgtagGTCGATAACAGAGACTCATCGGAACCTAAGATTACTCAAGAACAGGCGGCGAAGCTGTGTGATCGAAACTTCGGTGTTGGTGCCGATGGAGTGATTTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA