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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGATTTCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtgatttgatgcttttccataacttatttgatgtgtttttgtttttttggccgtagcttttgtgtttgaagttgttgctgacaatgagtttcaatggattatag

Basic information

species Arabidopsis thaliana
transcript AT1G20696.2
intron # 4
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|164100675|gb|ES042944.1|ES042944
EST:     CAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
genomic: CAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
EST: gi|124828250|gb|EH913116.1|EH913116
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGT
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGT
EST: gi|164206132|gb|EL980938.1|EL980938
EST:     ACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
genomic: ACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
EST: gi|301502423|gb|HO207963.1|HO207963
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
EST: gi|164160537|gb|EL999155.1|EL999155
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCC
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCC
EST: gi|164132569|gb|ES000124.1|ES000124
EST:     AGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAA-TCCTTGTCTGACTCT
genomic: AGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCT
EST: gi|164208171|gb|ES067428.1|ES067428
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAA
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAA
EST: gi|164105567|gb|ES007190.1|ES007190
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTGAG
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAGTGGAAATCCTTGTCTGACTCTGAG
EST: gi|164107054|gb|ES098900.1|ES098900
EST:     TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCT                         GTTGGCAAAGCTGGTGGTGAAAAG
genomic: TCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtg ... tggattatagGTTGGCAAAGCTGGTGGTGAAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGATTTCCGTGTGACGTACAAGGAGGAGCACCCTAAGAACAAGTCTGTTGCTGCTgtgagttgtgatttgatgcttttccataacttatttgatgtgtttttgtttttttggccgtagcttttgtgtttgaagttgttgctgacaatgagtttcaatggattatag

- - - - - - - - - - - AAGGAG
- - - - - - - - - - - - GGAGGA
- - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT