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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctttctcattatctttctaaactgaatcctaggtgttaatattctgcatgtttcatattttgatggtatcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAGTGCAAAAACTCAACAG

Basic information

species Arabidopsis thaliana
transcript AT4G35020.3
intron # 7
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|86021225|gb|DR316971.1|DR316971
EST:     AGCAATTCTTTGCCGAGCACCCTGGTS-TGTGCCTATCTCTACCGCTCAG                         GGTGAAGAACTAAAGAAGCTGATTGGGGCGC
genomic: AGCAATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGC
EST: gi|86021224|gb|DR316970.1|DR316970
EST:     CAATTCTTTTGCCGAGCACCCTGG-GTSTGTGCCTATCTCTACCGCTCAG                         GGTGAAGAACT
genomic: CAATTCTTT-GCCGAGCACCCTGGTGC-TGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACT
EST: gi|164131964|gb|ES199449.1|ES199449
EST:     GGTGCTGTGCCTATCTCTACCGCTCAG                         GGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAGT
genomic: GGTGCTGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAGT
EST: gi|86021223|gb|DR316969.1|DR316969
EST:     AGCAATTCTTTGCCGAGCACCCTGGTGSTGTGCCTATCTCTACCGCTCAG                         GGTGAAGA-CTAAAGAAGCTGATTGGGGCG
genomic: AGCAATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCG
EST: gi|164233599|gb|ES009017.1|ES009017
EST:     AGCAATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAG                         GGTGAAGAACTAAAGAAGACTGATTGGGGCGCCTGCTTATATCG
genomic: AGCAATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACTAAAGAAG-CTGATTGGGGCGCCTGCTTATATCG
EST: gi|164171767|gb|ES007800.1|ES007800
EST:     ATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAG                         GGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAG
genomic: ATTCTTTGCCGAGCACCCTGGTGCTGTGCCTATCTCTACCGCTCAGgtacctttct ... atcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatcctaggtgttaatattctgcatgtttcatattttgatggtatcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAGTGCAAAAACTCAACAG
                         atgtttcatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctttctcattatctttctaaactgaatcctaggtgttaatattctgcatgtttcatattttgatggtatcaaaacagGGTGAAGAACTAAAGAAGCTGATTGGGGCGCCTGCTTATATCGAATGCAGTGCAAAAACTCAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT