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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatcaatatccaaaaataaaatgatttttttttttataaatgaaatgattttaaaaattaatatgtaaattaataaaaatatgtatgtacgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACTTGTTGGTAATCGGCTTCCAAAGTTCAACAGCACAGAAGCTCGCCTTTTA

Basic information

species Arabidopsis thaliana
transcript AT5G25980.3
intron # 7
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|125195507|gb|EL210461.1|EL210461
EST:     TTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATAACATCATGAGGAAAC
genomic: TTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATA-CATCATGAGGAAAC
EST: gi|116446415|gb|EG489007.1|EG489007
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|124722159|gb|EH813561.1|EH813561
EST:     TTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: TTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116477703|gb|EG520295.1|EG520295
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCGTGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116446282|gb|EG488874.1|EG488874
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116410415|gb|EG453007.1|EG453007
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116439048|gb|EG481640.1|EG481640
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116439115|gb|EG481707.1|EG481707
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116447714|gb|EG490306.1|EG490306
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|116446304|gb|EG488896.1|EG488896
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
EST: gi|125128442|gb|EL172764.1|EL172764
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGC
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGC
EST: gi|116410418|gb|EG453010.1|EG453010
EST:     CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATG                         GTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT
genomic: CTAGAGAGCAAACAAGCAACTTGGAGGGCCAAAGAATTCTTCTTGGGATGgtatatatca ... cgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgattttaaaaattaatatgtaaattaataaaaatatgtatgtacgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACTTGTTGGTAATCGGCTTCCAAAGTTCAACAGCACAGAAGCTCGCCTTTTA
                       aattaat  putative branch site (score: 3)
     tttaaaaattaatatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatatcaatatccaaaaataaaatgatttttttttttataaatgaaatgattttaaaaattaatatgtaaattaataaaaatatgtatgtacgtacatcagGTTCATGGAGCCGCTAACAAAGGGTAAATACCCATACATCATGAGGAAACTTGTTGGTAATCGGCTTCCAAAGTTCAACAGCACAGAAGCTCGCCTTTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC