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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttaattctacatatacacatgcgtacgtatattgaaacaggatttaatgtgaataaaatttcttaacaacattgttaatataaatatgtacctttttctagctaattatctcttcaaaattttgttaaatgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTCTTGGGTCACATTGTGTCATTTGCCATGGGAATGGGAGGACTACCATGGA

Basic information

species Arabidopsis thaliana
transcript AT1G08930.1
intron # 14
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|86059161|gb|DR354918.1|DR354918
EST:     CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTC
genomic: CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTC
EST: gi|125183962|gb|EL198916.1|EL198916
EST:     CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAACTACACTCCCATCTTCACTTGCATCGGC
genomic: CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAACT-CACTCCCATCTTCACTTGCATCGGC
EST: gi|124834452|gb|EH918891.1|EH918891
EST:     CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAACTCACT
genomic: CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAACTCACT
EST: gi|124835485|gb|EH919924.1|EH919924
EST:     CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAA
genomic: CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAA
EST: gi|125123414|gb|EL169863.1|EL169863
EST:     CTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTC
genomic: CTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTC
EST: gi|124781912|gb|EH871855.1|EH871855
EST:     CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAG                         TCGTTTGGCATTCTTCCAGAACTCACTCCCAT
genomic: CTGCAATGGGTTTGAGTGCTTTGCTCTTAAGTGTTTCTTACGGTTTCCAGgtaattttaa ... tgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtacctttttctagctaattatctcttcaaaattttgttaaatgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTCTTGGGTCACATTGTGTCATTTGCCATGGGAATGGGAGGACTACCATGGA
               agctaat  putative branch site (score: 3)
                  taattatctcttcaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattttaattctacatatacacatgcgtacgtatattgaaacaggatttaatgtgaataaaatttcttaacaacattgttaatataaatatgtacctttttctagctaattatctcttcaaaattttgttaaatgttatgcagTCGTTTGGCATTCTTCCAGAACTCACTCCCATCTTCACTTGCATCGGCGTCTTGGGTCACATTGTGTCATTTGCCATGGGAATGGGAGGACTACCATGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA