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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttaattatttttttagctaaggtaaggaaaacttgatttttctggaaagtgaatcattttatcataaataatttgtttgtgtcaatgacttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT

Basic information

species Arabidopsis thaliana
transcript AT5G14740.3
intron # 2
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|124830103|gb|EH914654.1|EH914654
EST:     CAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCA
genomic: CAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCA
EST: gi|152035748|gb|BP855522.2|BP855522
EST:     CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
genomic: CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
EST: gi|152035330|gb|BP850738.2|BP850738
EST:     GCAAAGGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACCTTCAAACTTG                         AAGTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
genomic: GCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCA-CTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
EST: gi|47828530|gb|CK118214.1|CK118214
EST:     CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
genomic: CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
EST: gi|125273699|gb|EL287784.1|EL287784
EST:     CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCATACGAAGACGCCATCGAAGCTCTCA
genomic: CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCA
EST: gi|125154272|gb|EL184972.1|EL184972
EST:     CAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCT
genomic: CAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCT
EST: gi|125006686|gb|EL078955.1|EL078955
EST:     CTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAG
genomic: CTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAG
EST: gi|125078828|gb|EL141063.1|EL141063
EST:     CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTG                         AACTGAGAAGGATGGGAAACGAATCAT
genomic: CGCAAACGGAGCTTGTTTTCGGTGCACCTGCTTCAGCCACTTCAAACTTGgtatagtata ... acttgcacagAACTGAGAAGGATGGGAAACGAATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaaagtgaatcattttatcataaataatttgtttgtgtcaatgacttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT
       tgaatcattttatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagttaattatttttttagctaaggtaaggaaaacttgatttttctggaaagtgaatcattttatcataaataatttgtttgtgtcaatgacttgcacagAACTGAGAAGGATGGGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC