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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcgccttgagactaaagctcgtccttttagacatttgagttgttacatatgagggtggaatttgataggaagtgaattgggatataatgatgcataatcttgaaatttaaaactcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGAAGAGAAGCTAGCGTTTTGGATAAATGTGCACAATGCACTTGTGATGCAT

Basic information

species Arabidopsis thaliana
transcript AT5G66600.1
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|116429882|gb|EG472474.1|EG472474
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGATGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429885|gb|EG472477.1|EG472477
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429875|gb|EG472467.1|EG472467
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429897|gb|EG472489.1|EG472489
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429899|gb|EG472491.1|EG472491
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429878|gb|EG472470.1|EG472470
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429887|gb|EG472479.1|EG472479
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTCCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429893|gb|EG472485.1|EG472485
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACGTGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429873|gb|EG472465.1|EG472465
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429880|gb|EG472472.1|EG472472
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429891|gb|EG472483.1|EG472483
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACGTGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
EST: gi|116429889|gb|EG472481.1|EG472481
EST:     AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAA                         GTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA
genomic: AGAGACGCCAAAAAGGCCAGTGAGGTGGAAGATCTTCTGCAAAACTTCAAgtgagtcgcc ... actcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggaagtgaattgggatataatgatgcataatcttgaaatttaaaactcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGAAGAGAAGCTAGCGTTTTGGATAAATGTGCACAATGCACTTGTGATGCAT
                                              ctcttgc  CT-rich tract
                           ataatcttgaaattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtcgccttgagactaaagctcgtccttttagacatttgagttgttacatatgagggtggaatttgataggaagtgaattgggatataatgatgcataatcttgaaatttaaaactcttgcagGTCACTTATTAGTAGATTGGAGGAAGTCGATCCAAGGAAGTTGAAACATGAAGAGAAGCTAGCGTTTTGGATAAATGTGCACAATGCACTTGTGATGCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC