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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttcagacaccttaaagatcaatctttgcagatcacatctttttactgtgaatttgagtgccataaacttttttgactttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAAAATGATGCAAGCCGTTGATGAAGAGCGATATGATGAAGCCG

Basic information

species Arabidopsis thaliana
transcript AT1G75380.2
intron # 8
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|125157675|gb|EL186630.1|EL186630
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
EST: gi|125165497|gb|EL191755.1|EL191755
EST:     AGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
genomic: AGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
EST: gi|124812240|gb|EH897106.1|EH897106
EST:     CAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAA-TGGTCAGGCTTGTCTTGATAC
genomic: CAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATAC
EST: gi|125066515|gb|EL133361.1|EL133361
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAA
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAA
EST: gi|125212182|gb|EL227136.1|EL227136
EST:     TTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
genomic: TTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
EST: gi|125230407|gb|EL244492.1|EL244492
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGG
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGG
EST: gi|125269711|gb|EL283796.1|EL283796
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTT
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTT
EST: gi|125296080|gb|EL310165.1|EL310165
EST:     ATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
genomic: ATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAA
EST: gi|125252480|gb|EL266565.1|EL266565
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAG
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAG
EST: gi|125306086|gb|EL320171.1|EL320171
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGG
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGG
EST: gi|164007745|gb|ES007563.1|ES007563
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAG
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAG
EST: gi|125040414|gb|EL112683.1|EL112683
EST:     CAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATA
genomic: CAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATA
EST: gi|125019760|gb|EL092029.1|EL092029
EST:     TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCG                         ACCAAATGGTCAGGCTTGTACTTGATACGAAAGAGTTCAATATTTTGAG
genomic: TCAACACCGGCACCAGCTTCAGATGGTTTATTATTTACTGAACAAGACCGgtaaattttc ... ctttgtgcagACCAAATGGTCAGGCTTGT-CTTGATACGAAAGAGTTCAATATTTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcacatctttttactgtgaatttgagtgccataaacttttttgactttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAAAATGATGCAAGCCGTTGATGAAGAGCGATATGATGAAGCCG
                                       ttttgac  putative branch site (score: 3)
                               ataaacttttttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattttcagacaccttaaagatcaatctttgcagatcacatctttttactgtgaatttgagtgccataaacttttttgactttgtgcagACCAAATGGTCAGGCTTGTCTTGATACGAAAGAGTTCAATATTTTGAGCAAAATGATGCAAGCCGTTGATGAAGAGCGATATGATGAAGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC