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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttatagattactctagctgctaatagcttctctagaatctagtaaagttgggatgtttctttgtttgcttaaacgaatttggttacttaatccattattgtgttagtgtgctttgttggggagtagacaatagattgggcatgccctttttgtatccattgatgggtttgttatggtttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG

Basic information

species Arabidopsis thaliana
transcript AT3G14290.1
intron # 3
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|124943906|gb|EL020056.1|EL020056
EST:     TCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGG
genomic: TCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGG
EST: gi|125041034|gb|EL113303.1|EL113303
EST:     AGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
genomic: AGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
EST: gi|164159800|gb|ES117162.1|ES117162
EST:     CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTC
genomic: CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTC
EST: gi|152033857|gb|BP817785.2|BP817785
EST:     CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
genomic: CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
EST: gi|116474984|gb|EG517576.1|EG517576
EST:     CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
genomic: CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
EST: gi|164146370|gb|ES047817.1|ES047817
EST:     TCCTGAAGGTTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAA
genomic: TCCTGAAGG-TCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAA
EST: gi|124730249|gb|EH821651.1|EH821651
EST:     CTCC-GAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
genomic: CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
EST: gi|86075577|gb|DR371334.1|DR371334
EST:     CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAG                         CTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA
genomic: CTCCTGAAGGTCGTCTCTTTCAGGTTGAGTATGCCATTGAAGCTATCAAGgtaatttata ... ttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgggcatgccctttttgtatccattgatgggtttgttatggtttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG
              tttttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttatagattactctagctgctaatagcttctctagaatctagtaaagttgggatgtttctttgtttgcttaaacgaatttggttacttaatccattattgtgttagtgtgctttgttggggagtagacaatagattgggcatgccctttttgtatccattgatgggtttgttatggtttgattgcagCTTGGTTCTACTGCTATTGGTGTAAAGACGAAAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC