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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattttgctttctgcattgtctttgttagctgagtaaatccatggaaaaattgaaactttgtttctttcgtttttgtatgttgtgtgtgtccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAGTTTCCATAAGAAGTGAGCAAAGTACAGAAGGAAGCAGTGGTTTGGATAT

Basic information

species Arabidopsis thaliana
transcript AT4G34190.1
intron # 2
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|125041465|gb|EL113734.1|EL113734
EST:     TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCAT
genomic: TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCAT
EST: gi|125285214|gb|EL299299.1|EL299299
EST:     TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGT
genomic: TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGT
EST: gi|124978439|gb|EL051616.1|EL051616
EST:     TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAG
genomic: TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAG
EST: gi|125301937|gb|EL316022.1|EL316022
EST:     CAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: CAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125167250|gb|EL192650.1|EL192650
EST:     ATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: ATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|124922863|gb|EL001113.1|EL001113
EST:     TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGG
genomic: TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGG
EST: gi|124860982|gb|EH945419.1|EH945419
EST:     CAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: CAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125137369|gb|EL177224.1|EL177224
EST:     TCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: TCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125300485|gb|EL314570.1|EL314570
EST:     ACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: ACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125155665|gb|EL185663.1|EL185663
EST:     CTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: CTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125223133|gb|EL237218.1|EL237218
EST:     ACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: ACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|125000699|gb|EL072968.1|EL072968
EST:     GGAATCCGATCCACCTTCGCTTCTGGTTCTCCTTTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCA
genomic: GGAATCCGATCCACCTTCGCTTCTGGTTCTCC--TCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCA
EST: gi|124970726|gb|EL044541.1|EL044541
EST:     CTGG-ATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: CTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
EST: gi|47831402|gb|CK121086.1|CK121086
EST:     TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCT                         TGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG
genomic: TCCGCAACTTGCTGGAATCCGATCCACCTTCGCTTCTGGTTCTCCTCTCTgtacgtcttc ... tccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaaattgaaactttgtttctttcgtttttgtatgttgtgtgtgtccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAGTTTCCATAAGAAGTGAGCAAAGTACAGAAGGAAGCAGTGGTTTGGATAT
                                             tccgtttc  CT-rich tract
                          tttttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattttgctttctgcattgtctttgttagctgagtaaatccatggaaaaattgaaactttgtttctttcgtttttgtatgttgtgtgtgtccgtttcagTGCCATTGAAGTTGAGTATGACCCGTAGAGGAGGAAACAGAGCAGCATCAGTTTCCATAAGAAGTGAGCAAAGTACAGAAGGAAGCAGTGGTTTGGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - ctttctg
- - - - - - - - - - - - - - - - - - aaatcca
- - - - - - - - - - - - - - - - - - - - - - -gaaaaat