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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTTGCTCTCTCTCTCTCAACGCGGTTCAGATCCGAGTTTGGGAGATTCAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcctatcggattgtctatctattatctcgatgtaacttttacgattcatgattgtttctttacttttggattgttctgatttgtttttttgtg...

Basic information

species Arabidopsis thaliana
transcript AT3G13920.2
intron # 1
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|86034973|gb|DR330726.1|DR330726
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034937|gb|DR330690.1|DR330690
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCSAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035064|gb|DR330817.1|DR330817
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035170|gb|DR330923.1|DR330923
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035160|gb|DR330913.1|DR330913
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035037|gb|DR330790.1|DR330790
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|164139262|gb|EL970023.1|EL970023
EST:     CCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGGTTTGATGCACGTCAGTTTG
genomic: CCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAG-TTTGATGCACGTCAGTTTG
EST: gi|47829698|gb|CK119382.1|CK119382
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034857|gb|DR330610.1|DR330610
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|116403403|gb|EG445995.1|EG445995
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034967|gb|DR330720.1|DR330720
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTAA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035092|gb|DR330845.1|DR330845
EST:     AACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: AACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034880|gb|DR330633.1|DR330633
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGNATGCACGTCAGTTTG
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTG-ATGCACGTCAGTTTG
EST: gi|86035044|gb|DR330797.1|DR330797
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         SATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATG
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATG
EST: gi|86035139|gb|DR330892.1|DR330892
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|116436248|gb|EG478840.1|EG478840
EST:     GCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: GCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034992|gb|DR330745.1|DR330745
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035125|gb|DR330878.1|DR330878
EST:     AAGCATCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTATGA
genomic: AAGC-TCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86035051|gb|DR330804.1|DR330804
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034997|gb|DR330750.1|DR330750
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|116420410|gb|EG463002.1|EG463002
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034913|gb|DR330666.1|DR330666
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034888|gb|DR330641.1|DR330641
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034886|gb|DR330639.1|DR330639
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|86034984|gb|DR330737.1|DR330737
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCTTTGCTCTCTCTCTCTCAACGCGGTTCAGATCCGAGTTTGGGAGATTCAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcctatcggattgtctatctattatctcgatgtaacttttacgattcatgattgtttctttacttttggattgttctgatttgtttttttgtg

- - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT