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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatatggttaaaaaaatcgatacttcataagcgaaattcgagtttgagccattacttttttttttcttgttgcagGTGGAATCTGTAATCAACACAATAATTGAAGGAGCAAGGACAGGAGAGATTGGTGATGGCAAGATTTTTG

Basic information

species Arabidopsis thaliana
transcript AT4G01900.1
intron # 5
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|164216913|gb|ES024471.1|ES024471
EST:     ACAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAA                         GTGGAATCTGTAATCAACACAATAATTG
genomic: ACAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAAgtacgtatat ... cttgttgcagGTGGAATCTGTAATCAACACAATAATTG
EST: gi|164064971|gb|ES020511.1|ES020511
EST:     ACAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAA                         GTGGAATCTGTAATCAACACAA
genomic: ACAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAAgtacgtatat ... cttgttgcagGTGGAATCTGTAATCAACACAA
EST: gi|124865047|gb|EH949484.1|EH949484
EST:     CAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAA                         GTGGAATCTGTAATCAACACAATAATTGAAGGAG
genomic: CAAATTTGTTGCTAAAGTTAAGATGGAAATCGTTGTTAAGAAAGACCAAgtacgtatat ... cttgttgcagGTGGAATCTGTAATCAACACAATAATTGAAGGAG
EST: gi|124719547|gb|EH810949.1|EH810949
EST:     ATCGTTGTTAAGAAAGACCAA                         GTGGAATCTGTAATCAACACAATAATTGAAGGAGCAAAGGACAGGAGAGAT
genomic: ATCGTTGTTAAGAAAGACCAAgtacgtatat ... cttgttgcagGTGGAATCTGTAATCAACACAATAATTGAAGGAGCAA-GGACAGGAGAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttcataagcgaaattcgagtttgagccattacttttttttttcttgttgcagGTGGAATCTGTAATCAACACAATAATTGAAGGAGCAAGGACAGGAGAGATTGGTGATGGCAAGATTTTTG
                            ccattacttttttttt  CT-rich tract
                              attacttttttttttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtatatggttaaaaaaatcgatacttcataagcgaaattcgagtttgagccattacttttttttttcttgttgcagGTGGAATCTGTAATCAACACAATAATTGAAGGAGCAAGGACAGGAGAGATTGGTGATGGCAAGATTTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA