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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtagtctagtttcacctttttatttcatctgctcacattgtcgactctggtgctttacgtataataaccatggtccttgattcgcttgtttctgttgattaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG

Basic information

species Arabidopsis thaliana
transcript AT3G10920.1
intron # 3
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|124900068|gb|EH974686.1|EH974686
EST:     GGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
genomic: GGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
EST: gi|164143691|gb|ES127584.1|ES127584
EST:     AGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
genomic: AGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
EST: gi|125166269|gb|EL192146.1|EL192146
EST:     TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTT
genomic: TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTT
EST: gi|301501762|gb|HO207302.1|HO207302
EST:     TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
genomic: TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
EST: gi|164138873|gb|ES006049.1|ES006049
EST:     AAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAAC
genomic: AAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAAC
EST: gi|116426619|gb|EG469211.1|EG469211
EST:     TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
genomic: TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
EST: gi|47828007|gb|CK117691.1|CK117691
EST:     TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTG                         TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC
genomic: TGAAAAAGATGAGTGCTGAGGGTGCTGCAGTGCAAGGCTCAGGATGGGTGgtctgtagtc ... attaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttacgtataataaccatggtccttgattcgcttgtttctgttgattaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG
                                          ttgattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtagtctagtttcacctttttatttcatctgctcacattgtcgactctggtgctttacgtataataaccatggtccttgattcgcttgtttctgttgattaattcagTGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC