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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagggtttagggtttacaagatgtgtgtggtgatgttaaaagttaaaaccctgtaatctgatggtgataataaagttttaatcgtggttgttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGTAGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCA

Basic information

species Arabidopsis thaliana
transcript AT1G26550.1
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|86025350|gb|DR321103.1|DR321103
EST:     CTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025343|gb|DR321096.1|DR321096
EST:     CTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025368|gb|DR321121.1|DR321121
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025366|gb|DR321119.1|DR321119
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025354|gb|DR321107.1|DR321107
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025338|gb|DR321091.1|DR321091
EST:     TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025345|gb|DR321098.1|DR321098
EST:     AATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGAMGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: AATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025358|gb|DR321111.1|DR321111
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025346|gb|DR321099.1|DR321099
EST:     CGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025370|gb|DR321123.1|DR321123
EST:     ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025355|gb|DR321108.1|DR321108
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025363|gb|DR321116.1|DR321116
EST:     TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025367|gb|DR321120.1|DR321120
EST:     TCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: TCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025333|gb|DR321086.1|DR321086
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|164141503|gb|ES091652.1|ES091652
EST:     ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAG
genomic: ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAG
EST: gi|86025360|gb|DR321113.1|DR321113
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025347|gb|DR321100.1|DR321100
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025339|gb|DR321092.1|DR321092
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025342|gb|DR321095.1|DR321095
EST:     GATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025356|gb|DR321109.1|DR321109
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025344|gb|DR321097.1|DR321097
EST:     ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025369|gb|DR321122.1|DR321122
EST:     ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025361|gb|DR321114.1|DR321114
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025341|gb|DR321094.1|DR321094
EST:     GATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025335|gb|DR321088.1|DR321088
EST:     AATCTGATAGAAGAAGAATCTCAAG                         KTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGTTAAAGGAAA
genomic: AATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|164121792|gb|ES052964.1|ES052964
EST:     AATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGGTGGGAAGGGTAAAGGAA
genomic: AATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGG-TGGGAAGGGTAAAGGAA
EST: gi|86025362|gb|DR321115.1|DR321115
EST:     CGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025372|gb|DR321125.1|DR321125
EST:     CGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025349|gb|DR321102.1|DR321102
EST:     GATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025365|gb|DR321118.1|DR321118
EST:     TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAKGACGCAAAAGCTSGTGGGAAGGGTAAAGGWAA
genomic: TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025353|gb|DR321106.1|DR321106
EST:     CGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025331|gb|DR321084.1|DR321084
EST:     ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: ACTCTCTGCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025371|gb|DR321124.1|DR321124
EST:     TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: TCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025364|gb|DR321117.1|DR321117
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025348|gb|DR321101.1|DR321101
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025357|gb|DR321110.1|DR321110
EST:     AATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGTTAAAGGAAA
genomic: AATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025340|gb|DR321093.1|DR321093
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025334|gb|DR321087.1|DR321087
EST:     GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: GCTCGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
EST: gi|86025332|gb|DR321085.1|DR321085
EST:     CGATCGTTCAATCTGATAGAAGAAGAATCTCAAG                         TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA
genomic: CGATCGTTCAATCTGATAGAAGAAGAATCTCAAGgtaaagttct ... ttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaccctgtaatctgatggtgataataaagttttaatcgtggttgttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGTAGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCA
                              ttttaat  putative branch site (score: 3)
                                          ttgtttttt  putative PPT
                   tgataataaagtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagggtttagggtttacaagatgtgtgtggtgatgttaaaagttaaaaccctgtaatctgatggtgataataaagttttaatcgtggttgttttttatagTTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGTAGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- -ggtttag
- - - - - - - tacaaga
- - - - - - - - - - - - - - - - - - - - - -taaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaag