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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtatacttaatctagttagttattttttaggttatttatcattttgaaactagttgtctgaaattctaagatttgatttgtgatggtgataaatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACACATGAGGAGTGCCTTGAGGACTGCGATATATGTTGCCAGAAGTGTAATTG

Basic information

species Arabidopsis thaliana
transcript AT1G10588.1
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|116451694|gb|EG494286.1|EG494286
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCA-                         C--CATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451862|gb|EG494454.1|EG494454
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116483934|gb|EG526526.1|EG526526
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         ---CATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116483929|gb|EG526521.1|EG526521
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116483914|gb|EG526506.1|EG526506
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451871|gb|EG494463.1|EG494463
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451861|gb|EG494453.1|EG494453
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451869|gb|EG494461.1|EG494461
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451875|gb|EG494467.1|EG494467
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116483916|gb|EG526508.1|EG526508
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451867|gb|EG494459.1|EG494459
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116483932|gb|EG526524.1|EG526524
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         ---CATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451868|gb|EG494460.1|EG494460
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451866|gb|EG494458.1|EG494458
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
EST: gi|116451876|gb|EG494468.1|EG494468
EST:     CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCAT                         CA---TGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC
genomic: CTCTCTTCTCCTCACATCTTCATTTTATGTACTTTCAAGCGCTGATTCATgtaagtgtat ... aatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactagttgtctgaaattctaagatttgatttgtgatggtgataaatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACACATGAGGAGTGCCTTGAGGACTGCGATATATGTTGCCAGAAGTGTAATTG
                        atttgat  putative branch site (score: 5)
              aaattctaagattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgtatacttaatctagttagttattttttaggttatttatcattttgaaactagttgtctgaaattctaagatttgatttgtgatggtgataaatgaattagCAGCATGCGGTGGAAAGTGCAGTGTGAGATGCTCAAAGGCAGATCGAACACATGAGGAGTGCCTTGAGGACTGCGATATATGTTGCCAGAAGTGTAATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT