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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcaaagctcttgtctttacagtgagtgaacaaaactgtataatgagaagaagaatataatccatgttcttgaatatggcttcttcttcttgccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCTGACTTGTTTGAAGGTGATCAGAAGCCTCAGTACACGGTCCCTCCAAACG

Basic information

species Arabidopsis thaliana
transcript AT1G19130.1
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|125180301|gb|EL197383.1|EL197383
EST:     GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCT
genomic: GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCT
EST: gi|19877300|gb|AU238131.1|AU238131
EST:     GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
genomic: GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
EST: gi|124806125|gb|EH893132.1|EH893132
EST:     GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAG
genomic: GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAG
EST: gi|124874196|gb|EH955841.1|EH955841
EST:     CTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
genomic: CTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
EST: gi|124867036|gb|EH951473.1|EH951473
EST:     CCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
genomic: CCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
EST: gi|124863057|gb|EH947494.1|EH947494
EST:     TACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCCTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
genomic: TACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
EST: gi|164229866|gb|ES070321.1|ES070321
EST:     TTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
genomic: TTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCT
EST: gi|164196632|gb|ES015226.1|ES015226
EST:     GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCT
genomic: GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCT
EST: gi|125249415|gb|EL263500.1|EL263500
EST:     GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACT                         GTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGT
genomic: GCATACCAATGGCTGAAACCTGGCACTTTTATTTGGGTGAACCCCTTACTgtaagttcaa ... ccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaagaatataatccatgttcttgaatatggcttcttcttcttgccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCTGACTTGTTTGAAGGTGATCAGAAGCCTCAGTACACGGTCCCTCCAAACG
                                cttcttcttcttgcct  CT-rich tract
      aatataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcaaagctcttgtctttacagtgagtgaacaaaactgtataatgagaagaagaatataatccatgttcttgaatatggcttcttcttcttgccttgatcagGTAGTGGAACTCTACGATGATGGGAAGTTGAAATTCACATGTCTTGGTCCTGACTTGTTTGAAGGTGATCAGAAGCCTCAGTACACGGTCCCTCCAAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC