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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGCTTGCCCAGCTTTTCCTTTGTGCCCTCTGGCAATAACTGAGGCAGAGCGCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctctctgtgcacttatctaatcttgtgccattacaggcatttgatattgatgtgcaaaacttcttccttgtatcag

Basic information

species Arabidopsis thaliana
transcript AT5G04590.1
intron # 5
splice site 5'
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|116451400|gb|EG493992.1|EG493992
EST:     GCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
genomic: GCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
EST: gi|125069959|gb|EL135549.1|EL135549
EST:     GAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
genomic: GAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
EST: gi|124740977|gb|EH832139.1|EH832139
EST:     CGGGTATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAG
genomic: CGGG-ATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAG
EST: gi|124842415|gb|EH926852.1|EH926852
EST:     CGGGNTCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
genomic: CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
EST: gi|125282380|gb|EL296465.1|EL296465
EST:     AGCGCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
genomic: AGCGCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
EST: gi|125242376|gb|EL256461.1|EL256461
EST:     ATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAG
genomic: ATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAG
EST: gi|124750530|gb|EH840660.1|EH840660
EST:     ATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
genomic: ATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
EST: gi|124852161|gb|EH936598.1|EH936598
EST:     CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGNAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
genomic: CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
EST: gi|164174004|gb|ES163418.1|ES163418
EST:     GCGCGGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTT
genomic: GCGC-GGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTT
EST: gi|124759067|gb|EH849197.1|EH849197
EST:     CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCG
genomic: CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCA
EST: gi|125146598|gb|EL181243.1|EL181243
EST:     ATCCCCAGCACTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
genomic: ATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
EST: gi|125005567|gb|EL077836.1|EL077836
EST:     CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTG
genomic: CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAGAGTAACCGGTTG
EST: gi|125289346|gb|EL303431.1|EL303431
EST:     CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAG                         GTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG
genomic: CGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctc ... cttgtatcagGTTGGTCTGGACTACGACGAGTCTGTTGTGATAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGGCTTGCCCAGCTTTTCCTTTGTGCCCTCTGGCAATAACTGAGGCAGAGCGCGGGATCCCCAGCATTCTAAAGAGAGTTAGGGCAATGTTTGAAAAGgtaagatctctctgtgcacttatctaatcttgtgccattacaggcatttgatattgatgtgcaaaacttcttccttgtatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA