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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgctgagattcacatgaacctcttgtctcatggattagcttgattcatgttcagttagatttttcattctttattcaatttattgtattctcacttctcactctttatttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGATGCATACGCCCGACGAACTGCAGCTCTACAAAGG

Basic information

species Arabidopsis thaliana
transcript AT1G15200.2
intron # 5
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|164063632|gb|EL992688.1|EL992688
EST:     GGTTAATAGGAACGAGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAG                         AAGTTCAGGAAAAGAAGATAAGCAGCGTTCTGGAACAGA
genomic: GGTTAATAGGAAC-AGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAGgtatttgctg ... atttttgcagAAGTTCAG-AAAAGAAGATAAGCAGCGTTCTGGAACAGA
EST: gi|164075982|gb|ES000383.1|ES000383
EST:     GGTTAATAGGAACGAGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAG                         AAGTTCAGAAA-GAAGATAAGCAGCGTTCTGGAACAGA
genomic: GGTTAATAGGAAC-AGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAGgtatttgctg ... atttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGA
EST: gi|164231585|gb|EL990841.1|EL990841
EST:     GGTTAATAGGAACGAGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAG                         AAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGA
genomic: GGTTAATAGGAAC-AGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAGgtatttgctg ... atttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGA
EST: gi|164049443|gb|ES005954.1|ES005954
EST:     GGTTAATAGGAACGAGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAG                         AAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAAC
genomic: GGTTAATAGGAAC-AGAAGAATGCTAGGGAATCTTCTAGGGACTTTGGAGgtatttgctg ... atttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcattctttattcaatttattgtattctcacttctcactctttatttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGATGCATACGCCCGACGAACTGCAGCTCTACAAAGG
                                 ttctcac  putative branch site (score: 2)
                        tattctcacttctcac  CT-rich tract
     ttctttattcaattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttgctgagattcacatgaacctcttgtctcatggattagcttgattcatgttcagttagatttttcattctttattcaatttattgtattctcacttctcactctttatttttgcagAAGTTCAGAAAAGAAGATAAGCAGCGTTCTGGAACAGATGCATACGCCCGACGAACTGCAGCTCTACAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC