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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttcaattagtataacacaagttcgagtcttgtttagtactgttttggaaattggaactgatttggggtctcattgtttatttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGAAACCATCTTTGAAAGCTGTTGATATTATTGGATTTGGAACTGGGGCTGA

Basic information

species Arabidopsis thaliana
transcript AT2G24200.2
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|116437336|gb|EG479928.1|EG479928
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|116410702|gb|EG453294.1|EG453294
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|116409480|gb|EG452072.1|EG452072
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|116409617|gb|EG452209.1|EG452209
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|116409487|gb|EG452079.1|EG452079
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|116409618|gb|EG452210.1|EG452210
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|47830794|gb|CK120478.1|CK120478
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
EST: gi|47828107|gb|CK117791.1|CK117791
EST:     AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTNTAGCTTCAG                         GCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA
genomic: AAGTGTTTCTGATGAATCTAAGCTTAGTTCTGTATCAGCTTTAGCTTCAGgtaacttcaa ... ttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactgttttggaaattggaactgatttggggtctcattgtttatttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGAAACCATCTTTGAAAGCTGTTGATATTATTGGATTTGGAACTGGGGCTGA
                   aactgat  putative branch site (score: 3)
                                        tttattttt  putative PPT
                                  tcattgtttattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacttcaattagtataacacaagttcgagtcttgtttagtactgttttggaaattggaactgatttggggtctcattgtttatttttggatagGCATAGTACTTGGTTTATTTGAAGATGGTAGGTATAAGTCTGAATCAAAGAAACCATCTTTGAAAGCTGTTGATATTATTGGATTTGGAACTGGGGCTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT