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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatggataaagctgcatgagagcaaattaatgacattactcttttgtaggatttgataacctgtggtagcagcaaaggctaatattgcttgtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAATTGCTTCAGTCTCAGACATCAAATTTGCAAAAGAAGGAAGATATCTACTT

Basic information

species Arabidopsis thaliana
transcript AT1G51690.2
intron # 8
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|86070772|gb|DR366529.1|DR366529
EST:     CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
genomic: CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
EST: gi|86070771|gb|DR366528.1|DR366528
EST:     CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
genomic: CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
EST: gi|124707823|gb|EH799225.1|EH799225
EST:     TATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTT
genomic: TATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTT
EST: gi|86070769|gb|DR366526.1|DR366526
EST:     CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
genomic: CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
EST: gi|86070768|gb|DR366525.1|DR366525
EST:     CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
genomic: CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
EST: gi|86070770|gb|DR366527.1|DR366527
EST:     CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATT                         GTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT
genomic: CGCCTGATTGATCTGCGCCAGTCAGCTTTATGTGATTCACATTCAAAATTgtaagtcttg ... gtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaggatttgataacctgtggtagcagcaaaggctaatattgcttgtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAATTGCTTCAGTCTCAGACATCAAATTTGCAAAAGAAGGAAGATATCTACTT
                                          cttgtttct  CT-rich tract
     atttgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatggataaagctgcatgagagcaaattaatgacattactcttttgtaggatttgataacctgtggtagcagcaaaggctaatattgcttgtttctgcagGTTTGAGGAACCAGAGCAAGCAGGTCCTAAATCGTTCTTTACTGAGATAATTGCTTCAGTCTCAGACATCAAATTTGCAAAAGAAGGAAGATATCTACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA