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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcattgagaatttccaaactttctctgactgaaatttcatttttccttcatggaaatgattcttcctagttacttgttttgtctgtcttccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTGATCTACAATGATGTATCAGACAATTCCCACGGCACC

Basic information

species Arabidopsis thaliana
transcript AT1G69340.1
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|116484028|gb|EG526620.1|EG526620
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
EST: gi|116482685|gb|EG525277.1|EG525277
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATA
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATA
EST: gi|116484029|gb|EG526621.1|EG526621
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
EST: gi|86069588|gb|DR365345.1|DR365345
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
EST: gi|86069589|gb|DR365346.1|DR365346
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
EST: gi|116484047|gb|EG526639.1|EG526639
EST:     TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAG                         TGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT
genomic: TAGGGTCTTCCTCGATTCGCTTTTGGTGAATCAAATTTCTTTAATTTCAGgtgaatcctt ... ccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcatggaaatgattcttcctagttacttgttttgtctgtcttccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTGATCTACAATGATGTATCAGACAATTCCCACGGCACC
                                ttttgtctgtcttcca  CT-rich tract
         aaatgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcattgagaatttccaaactttctctgactgaaatttcatttttccttcatggaaatgattcttcctagttacttgttttgtctgtcttccatttccagTGAATACGCTTTTGACAGGAGGACCATACTAAGTCTTGGGAAAACCCTCTTCATAGTGGGTTTGATCTACAATGATGTATCAGACAATTCCCACGGCACC

- - - - - - - ccaaact
- - - - - - - - - - -ttctctg
- - - - - - - - - - - - - - -ctgaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg