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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacatagttttattggttcaacattgttgttgtagttggactctatatgcacaactaggtttgaaccagattcttatttgtttcttttttcatgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGACAGAATG

Basic information

species Arabidopsis thaliana
transcript AT3G58170.1
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|19877362|gb|AU238193.1|AU238193
EST:     ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGA                         CTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
genomic: ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGAgtaagcctgc ... catgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
EST: gi|116471650|gb|EG514242.1|EG514242
EST:     ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGA                         CTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
genomic: ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGAgtaagcctgc ... catgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
EST: gi|164059441|gb|ES120196.1|ES120196
EST:     GCAAGATAGAGTCATTCTCTTAAAACGA                         CTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
genomic: GCAAGATAGAGTCATTCTCTTAAAACGAgtaagcctgc ... catgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
EST: gi|86060002|gb|DR355759.1|DR355759
EST:     ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGA                         CTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
genomic: ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGAgtaagcctgc ... catgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
EST: gi|86088029|gb|DR383788.1|DR383788
EST:     ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGA                         CTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC
genomic: ATGAGCGTGCCTTGGAGGGATTGCAAGATAGAGTCATTCTCTTAAAACGAgtaagcctgc ... catgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcacaactaggtttgaaccagattcttatttgtttcttttttcatgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGACAGAATG
                         ttcttatttgtttctt  CT-rich tract
                        attcttatttgtttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacatagttttattggttcaacattgttgttgtagttggactctatatgcacaactaggtttgaaccagattcttatttgtttcttttttcatgaaacagCTATCTGGCGATATAAATGAAGAGGTCGATACTCATAACCGCATGCTTGACAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
aacatag
- - - - - - - - -tcaacat
- - - - - - - - - - - - - - - - - - - - - - - - - acaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaccaga