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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtaaaaatgtataaaacaccttacttttatctttcattaggccccaagatcttaggtacactcactcactaactatgttacatgtgtataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGCACATAAAGCTTCCAGCTGGTGACACAGCCGGAGTTGTCACAGCTTTCTA

Basic information

species Arabidopsis thaliana
transcript AT2G06850.1
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|125251996|gb|EL266081.1|EL266081
EST:     CGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125239980|gb|EL254065.1|EL254065
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGT
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGT
EST: gi|124907802|gb|EH981882.1|EH981882
EST:     TCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124936353|gb|EL013264.1|EL013264
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCA
EST: gi|301502134|gb|HO207674.1|HO207674
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125254153|gb|EL268238.1|EL268238
EST:     CCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTAATG
genomic: CCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA-TG
EST: gi|124828639|gb|EH913475.1|EH913475
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTTATG
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGT-ATG
EST: gi|125236652|gb|EL250737.1|EL250737
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA
EST: gi|125196942|gb|EL211896.1|EL211896
EST:     TTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124980274|gb|EL053238.1|EL053238
EST:     GGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: GGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125006617|gb|EL078886.1|EL078886
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAAT-CACTG                         GCACAGGATTT
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTT
EST: gi|124927957|gb|EL005644.1|EL005644
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA
EST: gi|125277807|gb|EL291892.1|EL291892
EST:     TCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124919794|gb|EH993532.1|EH993532
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGA
EST: gi|124921703|gb|EL000064.1|EL000064
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTC
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTC
EST: gi|124888090|gb|EH966992.1|EH966992
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124873107|gb|EH954752.1|EH954752
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAG
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAG
EST: gi|124938720|gb|EL015324.1|EL015324
EST:     CTCGACAAATACACTG                         GCACAGGATTTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATG
genomic: CTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGA-TTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATG
EST: gi|124939633|gb|EL016158.1|EL016158
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTA
EST: gi|125292259|gb|EL306344.1|EL306344
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGTATTTCA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGG-ATTTCA
EST: gi|125008050|gb|EL080319.1|EL080319
EST:     ATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: ATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125031881|gb|EL104150.1|EL104150
EST:     CAAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATAT
genomic: C-AGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATAT
EST: gi|124816577|gb|EH901443.1|EH901443
EST:     TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125262020|gb|EL276105.1|EL276105
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAA
EST: gi|124835389|gb|EH919828.1|EH919828
EST:     CTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|152035275|gb|BP849379.2|BP849379
EST:     ACAGTTCAATGGCGGT-CCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGAAATTTTAGTATGC
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125197627|gb|EL212581.1|EL212581
EST:     CAGTTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTG
genomic: CAG-TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTG
EST: gi|125217652|gb|EL231735.1|EL231735
EST:     CGAACTTCAGCTTATCCTCGACAAATACACAG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124943215|gb|EL019413.1|EL019413
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTG
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTG
EST: gi|125288780|gb|EL302865.1|EL302865
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAG
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAG
EST: gi|125237573|gb|EL251658.1|EL251658
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATA
EST: gi|124739058|gb|EH830220.1|EH830220
EST:     CAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125219546|gb|EL233631.1|EL233631
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCA
EST: gi|124800609|gb|EH890274.1|EH890274
EST:     CCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125188202|gb|EL203156.1|EL203156
EST:     CGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125148279|gb|EL182030.1|EL182030
EST:     CAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125238692|gb|EL252777.1|EL252777
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACGAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTT-AGTATGC
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125203172|gb|EL218126.1|EL218126
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAAT
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAAT
EST: gi|125324203|gb|EL338283.1|EL338283
EST:     CTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: CTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|124926304|gb|EL004167.1|EL004167
EST:     TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125203538|gb|EL218492.1|EL218492
EST:     TGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125274321|gb|EL288406.1|EL288406
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTTGTTTGGACATTTTAG
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTT-GTTTGGACATTTTAG
EST: gi|124744871|gb|EH836033.1|EH836033
EST:     TCCGAAACTTCAGCTTATCCTCGACAAATACTACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATG
genomic: TCCG-AACTTCAGCTTATCCTCGACAAATAC-ACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATG
EST: gi|124919787|gb|EH993525.1|EH993525
EST:     TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
genomic: TTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGC
EST: gi|125037060|gb|EL109329.1|EL109329
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTT
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTT
EST: gi|124777205|gb|EH867148.1|EH867148
EST:     CAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAAATACACTG                         GCACAGGATTTCAATCAAAGGGG
genomic: CAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAA-TACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGG
EST: gi|125312143|gb|EL326228.1|EL326228
EST:     ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTG                         GCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA
genomic: ACAGTTCAATGGCGGTTCCGAACTTCAGCTTATCCTCGACAAATACACTGgtacaattac ... ataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccaagatcttaggtacactcactcactaactatgttacatgtgtataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGCACATAAAGCTTCCAGCTGGTGACACAGCCGGAGTTGTCACAGCTTTCTA
                        cactaac  putative branch site (score: 1)
                                          tgtataaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgtaaaaatgtataaaacaccttacttttatctttcattaggccccaagatcttaggtacactcactcactaactatgttacatgtgtataaaaacagGCACAGGATTTCAATCAAAGGGGTCATATTTGTTTGGACATTTTAGTATGCACATAAAGCTTCCAGCTGGTGACACAGCCGGAGTTGTCACAGCTTTCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- -gtaaaaa
- - - - - - - - aaacacc
- - - - - - - - - - - - - - - - - - - - - - ccccaag