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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaatattgaagatattggaaacttatagaagacttttgtaaactgagagactgattacatatactagtaattgaaaattaataggatttttaaaaattgaattttatatcacaaaaatatacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCACGGCGGAGCTTCAGGCAGCCTCGTCATCGGACAGCAAATCTTTTGATCCC

Basic information

species Arabidopsis thaliana
transcript AT5G14740.3
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|152035748|gb|BP855522.2|BP855522
EST:     GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGATGTAGCTGGGGCCAAGGTGAAGAAGATCAC
genomic: GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
EST: gi|124735721|gb|EH827123.1|EH827123
EST:     CTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
genomic: CTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
EST: gi|152035330|gb|BP850738.2|BP850738
EST:     GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATGTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
genomic: GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
EST: gi|47828530|gb|CK118214.1|CK118214
EST:     GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
genomic: GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCAC
EST: gi|124964523|gb|EL038778.1|EL038778
EST:     TATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGA
genomic: TATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGA
EST: gi|125142871|gb|EL179894.1|EL179894
EST:     GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAG
genomic: GGAAACGAATCATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAG
EST: gi|124727489|gb|EH818891.1|EH818891
EST:     CATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGAT
genomic: CATATGAAGACGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGAT
EST: gi|124737490|gb|EH828892.1|EH828892
EST:     CGCCATCGAAGCTCTCAAGAAGCTTCTCAT                         TGAGAAGGATGATCTGAAGGATGTAG
genomic: CGCCATCGAAGCTCTCAAGAAGCTTCTCATgtaagtaaaa ... atacgagcagTGAGAAGGATGATCTGAAGGATGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaattaataggatttttaaaaattgaattttatatcacaaaaatatacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCACGGCGGAGCTTCAGGCAGCCTCGTCATCGGACAGCAAATCTTTTGATCCC
  aattaat  putative branch site (score: 3)
     taataggatttttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaaaatattgaagatattggaaacttatagaagacttttgtaaactgagagactgattacatatactagtaattgaaaattaataggatttttaaaaattgaattttatatcacaaaaatatacgagcagTGAGAAGGATGATCTGAAGGATGTAGCTGCGGCCAAGGTGAAGAAGATCACGGCGGAGCTTCAGGCAGCCTCGTCATCGGACAGCAAATCTTTTGATCCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT