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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcataaacaacacctccttaatattttgtggatccttgctgtttcccatccattatattatattgccaactgaaactatttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTCAAAAGGATTCAGCAGGCCGCCAGATTTTGGAGAAGCTCGGGTTTAACGA

Basic information

species Arabidopsis thaliana
transcript AT4G25370.1
intron # 4
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|47830527|gb|CK120211.1|CK120211
EST:     GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTG                         ATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
genomic: GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
EST: gi|86078578|gb|DR374335.1|DR374335
EST:     GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTG                         ATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
genomic: GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
EST: gi|116462728|gb|EG505320.1|EG505320
EST:     GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATTTG                         ATGTGGATGGGAAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
genomic: GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
EST: gi|47828108|gb|CK117792.1|CK117792
EST:     GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTG                         ATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGGTTTGGTCT
genomic: GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGG-TTTGGTCT
EST: gi|86036190|gb|DR331943.1|DR331943
EST:     CCGGCTCAAAAAGGCCATTGCCTGGGCCATTGATGANAANAATAAATTTG                         ATGTGGATGGGGAACTAACCACGGCCTACTTGCTT
genomic: CCGGCTCAAAA-GGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTT
EST: gi|86036186|gb|DR331939.1|DR331939
EST:     GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTG                         ATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC
genomic: GCCGGCTCAAAAGGCCATTGCCTGGGCCATTGATGAGAAGAATAAATCTGgtgtgcataa ... ttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgctgtttcccatccattatattatattgccaactgaaactatttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTCAAAAGGATTCAGCAGGCCGCCAGATTTTGGAGAAGCTCGGGTTTAACGA
             atccattatattatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgcataaacaacacctccttaatattttgtggatccttgctgtttcccatccattatattatattgccaactgaaactatttggtcacagATGTGGATGGGGAACTAACCACGGCCTACTTGCTTCTGGGGGTTTGGTCTCAAAAGGATTCAGCAGGCCGCCAGATTTTGGAGAAGCTCGGGTTTAACGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC