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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctttttactgtttattctctctaagcagattacttatttggtggatgtcttttgtttatagatagtgaatgattttgtttgttttttctgttcatcttattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAG

Basic information

species Arabidopsis thaliana
transcript AT2G47470.4
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|125301792|gb|EL315877.1|EL315877
EST:     ATCTCTTGAACCTCAAAA                         GTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA
genomic: ATCTCTTGAACCTCAAAAgtatgctttt ... tattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA
EST: gi|164077066|gb|ES089212.1|ES089212
EST:     GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA                         GTATGAGGGTCCAC
genomic: GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAgtatgctttt ... tattgaatagGTATGAGGGTCCAC
EST: gi|301501187|gb|HO206727.1|HO206727
EST:     GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA                         GTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA
genomic: GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAgtatgctttt ... tattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA
EST: gi|164227263|gb|EL970918.1|EL970918
EST:     GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA                         GTATGAGGGTCC
genomic: GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAgtatgctttt ... tattgaatagGTATGAGGGTCC
EST: gi|116441306|gb|EG483898.1|EG483898
EST:     GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA                         GTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA
genomic: GGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAgtatgctttt ... tattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttatagatagtgaatgattttgtttgttttttctgttcatcttattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAG
                         tttgttttttctgttc  CT-rich tract
                   attttgtttgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctttttactgtttattctctctaagcagattacttatttggtggatgtcttttgtttatagatagtgaatgattttgtttgttttttctgttcatcttattgaatagGTATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG