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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgaacttggttaatcatagtgagtattttggttagtttttgctgcgactaatttgttgtactgtgtctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATCTGGCCAAACATCTTTAGGGATTAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G16470.1
intron # 2
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|86030194|gb|DR325947.1|DR325947
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACSGCTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030204|gb|DR325957.1|DR325957
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030200|gb|DR325953.1|DR325953
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030188|gb|DR325941.1|DR325941
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030201|gb|DR325954.1|DR325954
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030207|gb|DR325960.1|DR325960
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030206|gb|DR325959.1|DR325959
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030192|gb|DR325945.1|DR325945
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030193|gb|DR325946.1|DR325946
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030184|gb|DR325937.1|DR325937
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030185|gb|DR325938.1|DR325938
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030177|gb|DR325930.1|DR325930
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030180|gb|DR325933.1|DR325933
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030203|gb|DR325956.1|DR325956
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030209|gb|DR325962.1|DR325962
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030197|gb|DR325950.1|DR325950
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030199|gb|DR325952.1|DR325952
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030190|gb|DR325943.1|DR325943
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
EST: gi|86030210|gb|DR325963.1|DR325963
EST:     TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG                         CCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC
genomic: TAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAGgtacgaactt ... tctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtattttggttagtttttgctgcgactaatttgttgtactgtgtctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATCTGGCCAAACATCTTTAGGGATTAAAG
                         gactaat  putative branch site (score: 2)
           ttagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgaacttggttaatcatagtgagtattttggttagtttttgctgcgactaatttgttgtactgtgtctgaaacagCCCATCTGGTAAGCTGGTGCAGATAGAACATGCCCTTACAGCTGTTGGATCTGGCCAAACATCTTTAGGGATTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT