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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtgattctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttgtgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA

Basic information

species Arabidopsis thaliana
transcript AT2G47470.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 3
gttagtgtgattctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttgtgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA
                                ||| || |  |   | ||   ||| || ||  ||       | || |||  || ||||||| ||||||||||| |||||| | || |  |||||||| ||   ||| |||||||| |||||||||||||| |||||||||||||||||  ||||
------------------------------gtaat-ttcattacccaaat---tgacagcttaatt-------tttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA

upper sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
---------gttagtgtgatt-ctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttg---tgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA
         |||  | | ||| | ||||     |||      |   || |  |  |  || |   ||  | | |  || |||    | || |||  || ||||||| ||||||||||| |||||| | || |  |||||||| ||   ||| |||||||| |||||||||||||| |||||||||||||||||  ||||
tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagtaatttcattacccattaaat-tgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA

upper sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G25050.1 (Glycine max), 3'ss of exon 9
gttagtgtgattctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttg---tgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA
|||    || ||| ||||     |||      |   || |  |  |  || |   ||  | | |  || |||    | || |||  || ||||||| ||||||||||| |||||| | || |  |||||||| ||   ||| |||||||| |||||||||||||| |||||||||||||||||  ||||
gttttattgtttccattttacctttctcagtgaggattcagtaatttcattacccattaaat-tgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA

upper sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G01820.1 (Glycine max), 3'ss of exon 3
-------gttagtgtgattctatttcggtattcagctccaatgtttaaaaga--tagatgaatgatagattgtttcaacttg---tgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA
       |||  |||  ||   ||| || |||   |    ||| || ||  |  |   |   |  || ||||    | |||    | || |||  || ||||||| ||||||||||| |||||| | || |  || ||||| ||   ||| |||||||| |||||||||||||| ||||||||||||||| |  ||||
tttgtacgtttttgttgtttctttttggcatttctcaatgatgattcaataacttcattacctattaaattgacaaagcttactttttaatgtaatgtagGTTGACTGTGATGAGCATAAGAGTTTGTGCAGCAAGTATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAAGCCAAAAA

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|124986678|gb|EL059182.1|EL059182
EST:     AAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAA
genomic: AAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAA
EST: gi|164114123|gb|ES038307.1|ES038307
EST:     GAAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGCTAGTGGA
genomic: GAAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
EST: gi|163983893|gb|ES156765.1|ES156765
EST:     CTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
genomic: CTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
EST: gi|164096433|gb|ES104240.1|ES104240
EST:     AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAG
genomic: AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAG
EST: gi|124812664|gb|EH897530.1|EH897530
EST:     AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAAGAGTGT
genomic: AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAA-GAGTGT
EST: gi|301501187|gb|HO206727.1|HO206727
EST:     AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
genomic: AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
EST: gi|116441306|gb|EG483898.1|EG483898
EST:     AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAG                         GTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA
genomic: AAAAGCTAGGGGCAAGCTTCAAGAAGGCTAAGTCTGTGTTGATTGCAAAGgttagtgtga ... tgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttaaaagatagatgaatgatagattgtttcaacttgtgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA
     taaaagata  TA-rich tract