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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTTGCTCTCTCTCTCTCAACGCGGTTCAGATCCGAGTTTGGGAGATTCAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcctatcggattgtctatctattatctcgatgtaacttttacgattcatgattgtttctttacttttggattgttctgatttgtttttttgtg...

Basic information

species Arabidopsis thaliana
transcript AT3G13920.4
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|116436248|gb|EG478840.1|EG478840
EST:     GCTTACCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
genomic: GCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATGCACGTCAGTTTGA
EST: gi|164139262|gb|EL970023.1|EL970023
EST:     CCAACTTTGCTCCAG                         CATGGCAGGATCTGCACCAGAAGGCACACAGGTTTGATGCACGTCAGTTTG
genomic: CCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAG-TTTGATGCACGTCAGTTTG
EST: gi|86035044|gb|DR330797.1|DR330797
EST:     CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAG                         SATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATG
genomic: CAAGCTCCCTGAAAAAAGCCCTTTACTCTCGCTTACCAACTTTGCTCCAGgttcgcatcc ... ttttatgtagCATGGCAGGATCTGCACCAGAAGGCACACAGTTTGATG
EST: gi|86035160|gb|DR330913.1|DR330913
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