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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgaggacctctgtatcatttagcatacgccattttatatgaggctttttcaaatattagtaccttttcttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTCCAGG

Basic information

species Arabidopsis thaliana
transcript AT2G13560.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G13560.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 14
--------------gtatg-tatgaggacctctgtatcatttagcatacgccatttta--tatgaggctttttcaaatattagtaccttttcttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTCCAGG
              || || ||  |     | | ||| ||      | | |  | | |  || | ||   || ||| |   | | ||| |  ||   | ||||||||||||| | || |||||||||||||||||||||||||| || ||||||||
ttggtaaagtactagtttggtacaattttttttttattatccttttt-ctctgtctcaattaaggggaacttacaactgcaatttcctgtaatttatgtagGAAATGGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG

upper sequence: AT2G13560.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 14
------gtatgtatgaggacctctgta----tcatttagc--atacgccattttatatgaggcttt---ttcaaatattagtaccttttct-tgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTCCAGG
        | | | || |    || ||    || |||  |  |||   | ||||| ||||   |      |    ||  || | |||||   ||  ||||||||||||||| | || |||||||||||||||||||| ||||| || ||||||||
attctaagaagcaagaagcttactataaaaatcttttctctaatatttctttttagatgattatacgagctttgttaacagcaacttttggatgctgcagGAAATGGTCATATTGGTCATTGCAACCAGGGAAACAATATGTACCTCTTTCCAGG
















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|125237395|gb|EL251480.1|EL251480
EST:     CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTG                         GAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATG
genomic: CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTGgtatgtatga ... cttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATG
EST: gi|125048844|gb|EL121113.1|EL121113
EST:     CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTG                         GAAATGGTCATGTAGGAACATTGCAACCAGGGAAACAACATGTAT
genomic: CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTGgtatgtatga ... cttgtggcagGAAATGGTCATGTAGGA-CATTGCAACCAGGGAAACAACATGTAT
EST: gi|116453720|gb|EG496312.1|EG496312
EST:     CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTG                         GAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC
genomic: CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTGgtatgtatga ... cttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC
EST: gi|47828604|gb|CK118288.1|CK118288
EST:     CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTG                         GAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC
genomic: CGAAAATATGATTTTTGCGAGTGGAAGCCCATTCAAGAATGTGGAATTTGgtatgtatga ... cttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC
EST: gi|125156919|gb|EL186287.1|EL186287
EST:     AAGAATGTGGAATTTG                         GAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC
genomic: AAGAATGTGGAATTTGgtatgtatga ... cttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catacgccattttatatgaggctttttcaaatattagtaccttttcttgtggcagGAAATGGTCATGTAGGACATTGCAACCAGGGAAACAACATGTATCTATTTCCAGG
                                     taccttttctt  CT-rich tract
                      tttttcaaatattagt  TA-rich tract