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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCTCGTCAAGCTTATTGGTTACTGCTGCGAGGACGATCACCGATTACTTGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccgcacccttctccattttttgaagtctctgttcattcctacatatacaagcttattctgccttttagtcttgtcatactcgtctcttatttaaccaagtcaccatgggctctctcttcag

Basic information

species Arabidopsis thaliana
transcript AT5G01020.1
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|163988286|gb|EL999290.1|EL999290
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGA
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGA
EST: gi|116406701|gb|EG449293.1|EG449293
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|163968963|gb|ES102947.1|ES102947
EST:     AATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: AATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|86072120|gb|DR367877.1|DR367877
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGGA
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGG-A
EST: gi|164131162|gb|ES092126.1|ES092126
EST:     TGAGTTCATTGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTT
genomic: TGAGTTCA-TGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTT
EST: gi|116468710|gb|EG511302.1|EG511302
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|47830578|gb|CK120262.1|CK120262
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|86072121|gb|DR367878.1|DR367878
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|116406702|gb|EG449294.1|EG449294
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|125005546|gb|EL077815.1|EL077815
EST:     TGTTTACGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGAT
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGAT
EST: gi|116447998|gb|EG490590.1|EG490590
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
EST: gi|116447999|gb|EG490591.1|EG490591
EST:     TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAA                         AAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG
genomic: TGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccg ... ctctcttcagAAACCACAGCTCCGCTATCTTGGTCTAGAAGGATGATGATTGCTCTTGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCTCGTCAAGCTTATTGGTTACTGCTGCGAGGACGATCACCGATTACTTGTTTATGAGTTCATGCTGCGAGGCAGTCTTGAGAATCACCTATTTCGAAgtaatccccgcacccttctccattttttgaagtctctgttcattcctacatatacaagcttattctgccttttagtcttgtcatactcgtctcttatttaaccaagtcaccatgggctctctcttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC