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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgtgtcccccttagcgatatttgaagaaatatgttgtgttaggtggtagaccactcgttctggcacatgttgataggcctttgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G31060.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 8
----aatgtgtcccccttagcgatatttgaagaaatatgttgtgttaggtggtagaccactcgttctggcacat-gttgataggcctttgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG
    || ||     |  |||   | |||  | ||| | ||| | |  |||  ||    | | ||| |   | |  ||  ||||||   |||||| |       |||| ||||| || ||||| || ||||| || ||||| ||||||||||| || ||||||||||| ||  |||||||||| ||||| |||| |||||| || |
tttgaaggttcattctctag---tttttacaaaaaca-gttttttatggttttac-ttattggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG

upper sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 8
----aatgtgtcccccttagcgatatttgaagaaatatgttgtgttaggtggtagaccactcgttctggcacat-gttgataggcctttgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG
    || ||     |  |||   | |||| | ||| | ||| | ||| ||  |     | | ||| |   | |  ||  |||| |   |  | | ||   || |||| ||||| || ||||| || ||||| || ||||| ||||||||||| || || |||||||| ||  |||||||||| ||||| |||| |||||| || |
tttgaaggttcattctctag---tttttgcataaaca-gtttt-ttatgtttttacttattggttatcttatagagtaaatagactaatattgaactttttgtagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTCGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG

upper sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 8
aatgtgtcccccttagcgatatttgaagaaatatgttgtgttaggtggtagaccactcgttctggcacat--gttgataggcctt--tgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG
 ||  ||   | |   | ||  ||||     | | || |  |  |    |||   |  |  |||    |   |  |  | | | |  |  | || |   |  |||||||||| |||| ||| || ||||| |||||||| ||||| ||||||||||| |||||||| ||  | ||||| || ||||| ||||||||||| || |
gataggttttctt---ctatgcttgatactgtgtcttcttctttgcccaagaaatcctggactgctttactagcagtaaagtcctaattttgatttat-tatagTTAACTGGTGGAAAAATTGGTGACCGATTAATGGCGGAAGCAGAAACAAATCTAGCCATAAATGTGCTCCCAGGATTATCAGAATCATATGAAGTTCAGG

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|164060162|gb|ES186392.1|ES186392
EST:     TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCAC                         TTAACTGGAGGAAGAATCGGGGACCGGTTAA
genomic: TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCACgtatgtttaa ... ctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAA
EST: gi|47832144|gb|CK121828.1|CK121828
EST:     TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCAC                         TTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAAT
genomic: TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCACgtatgtttaa ... ctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAAT
EST: gi|116457298|gb|EG499890.1|EG499890
EST:     TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCAC                         TTAACTGGAGGAAGAATCGGGGACCGGT
genomic: TGACGTTTGGTGTCAATGACTCTCCGTTGGCTGGTCAGGATGGCACCCACgtatgtttaa ... ctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtagaccactcgttctggcacatgttgataggcctttgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG
                                      tgctaat  putative branch site (score: 2)