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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGATAGAAAGAATTGGAAGAATTCAACTCCGAAAGCTGTATATTCCGGCAATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttgagcttttaaccatgttcttgaactgtgtgattttgaactctttttgatggtcaagtctggataaatttgttactttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G02560.1
intron # 2
splice site 5'
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|124935454|gb|EL012438.1|EL012438
EST:     TCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAGG
genomic: TCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAGG
EST: gi|124950257|gb|EL025734.1|EL025734
EST:     TTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAAG
genomic: TTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAA-G
EST: gi|124993245|gb|EL065514.1|EL065514
EST:     AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTA
genomic: AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTA
EST: gi|125048270|gb|EL120539.1|EL120539
EST:     AGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAGG
genomic: AGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCTCAAGG
EST: gi|125103668|gb|EL157991.1|EL157991
EST:     AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCT
genomic: AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCTTATGCT
EST: gi|125222004|gb|EL236089.1|EL236089
EST:     AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAG                         AGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCT
genomic: AATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttg ... tactttgcagAGATGATTTACAAGTCCCTTCTTCGCCGTATTTTCCTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGATAGAAAGAATTGGAAGAATTCAACTCCGAAAGCTGTATATTCCGGCAATCTCTGGACACCGGAGATTCCGTCTCCTCAAGGAGTTTGGTCCATTAGgtgaaacttgagcttttaaccatgttcttgaactgtgtgattttgaactctttttgatggtcaagtctggataaatttgttactttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG