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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttctaagcttagttagccaaagttgtgtgtattaagtcaattgtttcaagcgttttattaacctgtgggtgttataataatgcag

Basic information

species Arabidopsis thaliana
transcript AT1G20696.2
intron # 5
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|164100675|gb|ES042944.1|ES042944
EST:     GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCG
genomic: GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCG
EST: gi|164206132|gb|EL980938.1|EL980938
EST:     GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGG
genomic: GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGG
EST: gi|301502423|gb|HO207963.1|HO207963
EST:     GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
genomic: GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
EST: gi|125226245|gb|EL240330.1|EL240330
EST:     TGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
genomic: TGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
EST: gi|164017044|gb|ES140330.1|ES140330
EST:     CTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
genomic: CTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAG
EST: gi|164132569|gb|ES000124.1|ES000124
EST:     GTTGGCAAAGCTGGTGGTGAAAAGTGGAA-TCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGC
genomic: GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGC
EST: gi|164235543|gb|ES101910.1|ES101910
EST:     CTGCTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCC
genomic: CTGCTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCC
EST: gi|164215576|gb|ES095481.1|ES095481
EST:     GTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTAATGA
genomic: GTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTA-TGA
EST: gi|124889979|gb|EH968881.1|EH968881
EST:     CTGCTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT                         GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAG
genomic: CTGCTGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttc ... aataatgcagGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTgtacgttttctaagcttagttagccaaagttgtgtgtattaagtcaattgtttcaagcgttttattaacctgtgggtgttataataatgcag

- - GCAAAG
- - -  AAGCTG
- - - - -  TGGTGG
- - - - - - - - - - - AGTGGA