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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatctcatttatagtaaattctttagatcacatggaagtcagagatagtaaaatttgctttttccag

Basic information

species Arabidopsis thaliana
transcript AT4G22890.1
intron # 9
splice site 5'
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|125187918|gb|EL202872.1|EL202872
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAA
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAA
EST: gi|124857199|gb|EH941636.1|EH941636
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGG
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGG
EST: gi|125252722|gb|EL266807.1|EL266807
EST:     CCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: CCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|125237810|gb|EL251895.1|EL251895
EST:     AGCTTAAACCCTGTGAG                         CTAGATGAAGATGGG-AAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: AGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|124817010|gb|EH901876.1|EH901876
EST:     ATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAAT-GA
genomic: ATTGCCAGAAGGAAGCCAAGCTTAAACCCTG-TGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGA
EST: gi|125219383|gb|EL233468.1|EL233468
EST:     TAAACCCTGTGAG                         CTAGATGAAGATGGG-AAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: TAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|124980972|gb|EL053873.1|EL053873
EST:     CATTGCCAGGAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: CATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|124867418|gb|EH951855.1|EH951855
EST:     AGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: AGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|86077608|gb|DR373365.1|DR373365
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|164092135|gb|ES003172.1|ES003172
EST:     TCTAGGTTGATACACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAG
genomic: TCTAGGTTGAT-CACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAG
EST: gi|124711835|gb|EH803237.1|EH803237
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAA
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAA
EST: gi|124883968|gb|EH962870.1|EH962870
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|86076317|gb|DR372074.1|DR372074
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGATGGGAAAAGAAGAATGGGTTTTGTCAGAAGCAAAATAGAT
EST: gi|124891607|gb|EH970509.1|EH970509
EST:     TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAG                         CTAGATGAAGAT
genomic: TTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatct ... ctttttccagCTAGATGAAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCGGAACCGCGATGGTGTATGACTCGGGTTCTAGGTTGATCACATTGCCAGAAGGAAGCCAAGCTTAAACCCTGTGAGgtacacatctcatttatagtaaattctttagatcacatggaagtcagagatagtaaaatttgctttttccag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT