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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttttttctgatccattttgtagacaaagaaagttgcatatgtatctttgaattggtatgttcgtaacatatcctttaaataatgcgttatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGTTTGAAGAAGCATTTCACTAAACTGGTGAAGCAGGGAAAGATTCTCAGTG

Basic information

species Arabidopsis thaliana
transcript AT4G19610.1
intron # 10
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|116413076|gb|EG455668.1|EG455668
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAATGTTAAGAATTTGAGCTTCAAGACAACTGATGAGGGT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
EST: gi|116458754|gb|EG501346.1|EG501346
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAAT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAAT
EST: gi|116413074|gb|EG455666.1|EG455666
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAATGTTAAGAATTTGAGCTTCAAGACAACTGATGAGGGT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
EST: gi|116458744|gb|EG501336.1|EG501336
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
EST: gi|116458748|gb|EG501340.1|EG501340
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAATGTTAAGAATTTGAGCTTCAAGACAACTGATGAGGGT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
EST: gi|116413072|gb|EG455664.1|EG455664
EST:     GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAG                         TCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT
genomic: GAAGAGTCAACTTGGAGCAGCAGGTTGAAATCGATCCAGATGTAACTGAGgtatgtccag ... tatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctttgaattggtatgttcgtaacatatcctttaaataatgcgttatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGTTTGAAGAAGCATTTCACTAAACTGGTGAAGCAGGGAAAGATTCTCAGTG
                  tcgtaac  putative branch site (score: 2)
                               tttaaataatgcgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttttttctgatccattttgtagacaaagaaagttgcatatgtatctttgaattggtatgttcgtaacatatcctttaaataatgcgttatatttcagTCAAATGTCCTTAATGTTAAGAATCTGAGCTTCAAGACAACTGATGAGGGTTTGAAGAAGCATTTCACTAAACTGGTGAAGCAGGGAAAGATTCTCAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - -ctgatcc
- - - - - - - - - - - -agacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataat