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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCATATTCAGATTGTGCCAGTCATGTCCTATGCCCTTGTTGCTCTCTTTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactcaaaacgtcagatacaaatctatatttatggtccaggaattttatttgatataagtgttcaagtgtggtgagtttaatcgattaccggaaa...

Basic information

species Arabidopsis thaliana
transcript AT1G52200.1
intron # 3
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|124724037|gb|EH815439.1|EH815439
EST:     TTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|124996936|gb|EL069205.1|EL069205
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGA
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGA
EST: gi|19874528|gb|AU235359.1|AU235359
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|116416370|gb|EG458962.1|EG458962
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|86076824|gb|DR372581.1|DR372581
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGTGAAGCAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|301501054|gb|HO206594.1|HO206594
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|125218434|gb|EL232517.1|EL232517
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGA
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGA
EST: gi|19740677|gb|AU226030.1|AU226030
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|124734097|gb|EH825499.1|EH825499
EST:     TAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|125249962|gb|EL264047.1|EL264047
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATA
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATA
EST: gi|125237000|gb|EL251085.1|EL251085
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACT
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACT
EST: gi|125137416|gb|EL177271.1|EL177271
EST:     ACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCA
genomic: ACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCA
EST: gi|124917313|gb|EH991187.1|EH991187
EST:     TCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
genomic: TCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGACAAGGACAATATGAGAGAGAAGCAC
EST: gi|124797902|gb|EH887581.1|EH887581
EST:     TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAG                         GTTGGAATGGGATACTTGCTCAAGGAC
genomic: TTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactc ... ataattgcagGTTGGAATGGGATACTTGCTCAAGGAC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCCATATTCAGATTGTGCCAGTCATGTCCTATGCCCTTGTTGCTCTCTTTGTCAAGAATACAGAGAGCTCAAGATTAGGAATCTTGATCCTTCTCTAGgtactaactcaaaacgtcagatacaaatctatatttatggtccaggaattttatttgatataagtgttcaagtgtggtgagtttaatcgattaccggaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatacaaa