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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagagagatcagtagagctaattgtcagtttcagtgttgttgttatgaatgttttaagacaagttctaagtaaattcttgttgtcttgggtttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCAGTCGTCAACAACGAACAAGAAGAGGATGATAATGAAGCAGAGGATGATG

Basic information

species Arabidopsis thaliana
transcript AT5G63135.1
intron # 1
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|164099957|gb|EL977387.1|EL977387
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATT
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATT
EST: gi|86020956|gb|DR316702.1|DR316702
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGANGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACC
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGA-GATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACC
EST: gi|116458232|gb|EG500824.1|EG500824
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020958|gb|DR316704.1|DR316704
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGC-AMGNGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86081906|gb|DR377665.1|DR377665
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020962|gb|DR316708.1|DR316708
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTNATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020960|gb|DR316706.1|DR316706
EST:     AGAACGAGGATATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACRNGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020965|gb|DR316711.1|DR316711
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAAC-RGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|116458353|gb|EG500945.1|EG500945
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020949|gb|DR316695.1|DR316695
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACR-GATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86078597|gb|DR374354.1|DR374354
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020957|gb|DR316703.1|DR316703
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAAMG-GATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020952|gb|DR316698.1|DR316698
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAAC-RGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020959|gb|DR316705.1|DR316705
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
EST: gi|86020966|gb|DR316712.1|DR316712
EST:     AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAG                         TGCAACGNGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA
genomic: AGAACGAGGAGATTCTTCTCGCCATGGAAGAAGCTGAGTTCGAAGAAAAGgtagcttcct ... tttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatgttttaagacaagttctaagtaaattcttgttgtcttgggtttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCAGTCGTCAACAACGAACAAGAAGAGGATGATAATGAAGCAGAGGATGATG
                     taagtaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagagagatcagtagagctaattgtcagtttcagtgttgttgttatgaatgttttaagacaagttctaagtaaattcttgttgtcttgggtttggtgcagTGCAACGAGATCAGAAAGATGAGTCCTGCTTTACCGGTAATTGGAAAACCAGTCGTCAACAACGAACAAGAAGAGGATGATAATGAAGCAGAGGATGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aagacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagtaaa