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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattttcactcaaattcttgattcatttatgtcaatctataatactagctatataacgagttaaaactaaagctaatgaatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAACTTGATCTCCAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGA

Basic information

species Arabidopsis thaliana
transcript AT3G15840.1
intron # 1
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|47828825|gb|CK118509.1|CK118509
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|47828827|gb|CK118511.1|CK118511
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|47828708|gb|CK118392.1|CK118392
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|116441102|gb|EG483694.1|EG483694
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGCTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|47831953|gb|CK121637.1|CK121637
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|47830759|gb|CK120443.1|CK120443
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|47832287|gb|CK121971.1|CK121971
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
EST: gi|124720368|gb|EH811770.1|EH811770
EST:     CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGG
genomic: CGCCGTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGG
EST: gi|116479684|gb|EG522276.1|EG522276
EST:     GTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTT                         TGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC
genomic: GTTTTCGCCTCTCCGTCGCAGCCTTTATCCTCGAAACGTAGTTTTTgtaagtattt ... aatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctataatactagctatataacgagttaaaactaaagctaatgaatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAACTTGATCTCCAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGA
                           ttaaaactaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtattttcactcaaattcttgattcatttatgtcaatctataatactagctatataacgagttaaaactaaagctaatgaatgatacagTGTACAGTTCAAGGATTGGTCCAATACTAAGGAGATTTCCGAGGAAGAAACTTGATCTCCAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA