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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacaataatgaagcaattagcacctgtgcagtgtagaaaatttgggagtatatgttgttgaagttgatcctttaattcttggtgtaaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAGCTGCAAAACAAGCTGGAAAAGTGCCAGACGTTTTCTACTGTCTCAAGCT

Basic information

species Arabidopsis thaliana
transcript AT1G23310.2
intron # 12
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|124749063|gb|EH839193.1|EH839193
EST:     CGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: CGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125183443|gb|EL198397.1|EL198397
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTNAAATACGGTTACCAACGGGA
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGA
EST: gi|125008534|gb|EL080803.1|EL080803
EST:     ACAGATGGATTCTAACAGCTGC-AAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAA
genomic: ACAGATGGATTC-AACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAA
EST: gi|124749301|gb|EH839431.1|EH839431
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTC
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTC
EST: gi|124753843|gb|EH843973.1|EH843973
EST:     GTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: GTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125196537|gb|EL211491.1|EL211491
EST:     CAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: CAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125019558|gb|EL091827.1|EL091827
EST:     GGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAA
genomic: GGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAA
EST: gi|125102903|gb|EL157496.1|EL157496
EST:     TTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCC
genomic: TTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCC
EST: gi|125325840|gb|EL339920.1|EL339920
EST:     CAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: CAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125104679|gb|EL158686.1|EL158686
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGG
EST: gi|124846043|gb|EH930480.1|EH930480
EST:     AACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: AACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125093382|gb|EL150980.1|EL150980
EST:     ACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: ACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|124995068|gb|EL067337.1|EL067337
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|124916695|gb|EH990569.1|EH990569
EST:     TGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTAACCAACGGGAGCTCTCCAA
genomic: TGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTA-CCAACGGGAGCTCTCCAA
EST: gi|124823263|gb|EH908129.1|EH908129
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCT
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCT
EST: gi|124975104|gb|EL048622.1|EL048622
EST:     AATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: AATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125114608|gb|EL164957.1|EL164957
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACC
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACC
EST: gi|86074126|gb|DR369883.1|DR369883
EST:     ACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: ACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTT-CACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|86074135|gb|DR369892.1|DR369892
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|124911888|gb|EH985968.1|EH985968
EST:     ATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: ATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|125312593|gb|EL326678.1|EL326678
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGG
EST: gi|125234200|gb|EL248285.1|EL248285
EST:     CGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: CGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|124712895|gb|EH804297.1|EH804297
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTC
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTC
EST: gi|125107046|gb|EL160435.1|EL160435
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTAT
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTAT
EST: gi|125230524|gb|EL244609.1|EL244609
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGA
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGA
EST: gi|124911855|gb|EH985935.1|EH985935
EST:     TGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
genomic: TGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAG
EST: gi|124748848|gb|EH838978.1|EH838978
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACG
EST: gi|124901846|gb|EH975926.1|EH975926
EST:     GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATACGG
genomic: GACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATACGG
EST: gi|124939657|gb|EL016181.1|EL016181
EST:     ATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAG                         GTGCAATGTATTCGTTTCCTCAAATAACGGTTACCAACGGGAGCTCTCCAA
genomic: ATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgtaaaacaat ... taaatgttagGTGCAATGTATTCGTTTCCTCAAATA-CGGTTACCAACGGGAGCTCTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgggagtatatgttgttgaagttgatcctttaattcttggtgtaaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAGCTGCAAAACAAGCTGGAAAAGTGCCAGACGTTTTCTACTGTCTCAAGCT
                              ctttaat  putative branch site (score: 4)
                               tttaattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaacaataatgaagcaattagcacctgtgcagtgtagaaaatttgggagtatatgttgttgaagttgatcctttaattcttggtgtaaatgttagGTGCAATGTATTCGTTTCCTCAAATACGGTTACCAACGGGAGCTCTCCAAGCTGCAAAACAAGCTGGAAAAGTGCCAGACGTTTTCTACTGTCTCAAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT