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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattaatcttcaagactaaaactcacaaatttataccgatgtgaatttcatagtttcgtctaaatttgacctctgctttgttctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAGGGTTTAGTTCTTTTAGCAGACGAGGTTTATCAAGAGAATGTCTATGTCC

Basic information

species Arabidopsis thaliana
transcript AT1G17290.1
intron # 9
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|116451787|gb|EG494379.1|EG494379
EST:     TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
genomic: TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
EST: gi|164193110|gb|ES195549.1|ES195549
EST:     CACTTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAA
genomic: CAC-TGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAA
EST: gi|125305358|gb|EL319443.1|EL319443
EST:     TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAAACCAG
genomic: TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAAACCAG
EST: gi|164116284|gb|EL976544.1|EL976544
EST:     TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAATTTCTGCAAGCAAGAG
genomic: TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
EST: gi|125322936|gb|EL337018.1|EL337018
EST:     CCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
genomic: CCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
EST: gi|116471643|gb|EG514235.1|EG514235
EST:     TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAG                         GTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG
genomic: TCACTGTGAGAGCTTTGGCTGTCATTAACCCTGGAAACCCGACAGGGCAGgtaaattaat ... ctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtgaatttcatagtttcgtctaaatttgacctctgctttgttctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAGGGTTTAGTTCTTTTAGCAGACGAGGTTTATCAAGAGAATGTCTATGTCC
                                cctctgctttgttct  CT-rich tract
      aatttcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattaatcttcaagactaaaactcacaaatttataccgatgtgaatttcatagtttcgtctaaatttgacctctgctttgttctggtaaaagGTTCTTTCGGAAGAAAACCAGCGTGACGTTGTTAAGTTCTGCAAGCAAGAGGGTTTAGTTCTTTTAGCAGACGAGGTTTATCAAGAGAATGTCTATGTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA