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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggacagacaaaatcaagtctcgtaatcatgttcttgtttctctttgggtctctgactttgtccatgtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCAACCTTTGTGGCAGCTATTTTTGCCGCTGTAACCGCTGTCTTCGGGATGA

Basic information

species Arabidopsis thaliana
transcript AT2G03620.2
intron # 7
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|116398302|gb|EG440894.1|EG440894
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACCGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116400871|gb|EG443463.1|EG443463
EST:     CGCTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CGCTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116400882|gb|EG443474.1|EG443474
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398147|gb|EG440739.1|EG440739
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398342|gb|EG440934.1|EG440934
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398341|gb|EG440933.1|EG440933
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398297|gb|EG440889.1|EG440889
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398541|gb|EG441133.1|EG441133
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398331|gb|EG440923.1|EG440923
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACCGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398333|gb|EG440925.1|EG440925
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACCGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116400885|gb|EG443477.1|EG443477
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGA
EST: gi|116400881|gb|EG443473.1|EG443473
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398300|gb|EG440892.1|EG440892
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116398332|gb|EG440924.1|EG440924
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACCGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116400869|gb|EG443461.1|EG443461
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
EST: gi|116400874|gb|EG443466.1|EG443466
EST:     CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTG                         GGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA
genomic: CTGAAAGAGTATATAGATGATACAGAGGATCTGATCAACATTAAGCTGgtaaggacag ... gtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtaatcatgttcttgtttctctttgggtctctgactttgtccatgtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCAACCTTTGTGGCAGCTATTTTTGCCGCTGTAACCGCTGTCTTCGGGATGA
                             ctctgac  putative branch site (score: 3)
                                            tgttttt  putative PPT
                                           atgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggacagacaaaatcaagtctcgtaatcatgttcttgtttctctttgggtctctgactttgtccatgtttttgtagGGGAATGTGCAGAATCAGTTGATTCAGTTTCAACTGCTTCTCACCGCGGCAACCTTTGTGGCAGCTATTTTTGCCGCTGTAACCGCTGTCTTCGGGATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT