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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctccaggagagacaattctcccagtgctctcagtcacggctgtgtttggttgttcgtttgttatatatcttatagctttctatttatttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTTGGTAGCGAGACA

Basic information

species Arabidopsis thaliana
transcript AT5G66850.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------------------------------------gtaacctccaggagagacaattctcccagtgctctcagtcacggctgtgtttggttgttcgtttgttatatatc--ttatagctttctatttatttatttc-agGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTTGGTAGCGAGACA
                                                                                                   | ||||     | |   | |  |     | | |  | | |    |   ||   |  |||  ||  || ||     |||    ||||||  | ||| |||| |||| || ||| |||| ||  | || ||||||||||||||||||||||||| ||||||||| | |
gttattcatctcaatagttaatggagtatatacaactgtttatttattaactgtgtaaaatacactaacttccatgttgtatttttaattaagattgtctcaccttagctatatgaagtgttttatttacccaaaattat--ttcctttctataattcactttatacatcctcattaccaatttctacctttttttttccagGAAATTAAAGTTCTTAGCCATCTGCAACATCCAAACATTGTGCAGTATTATGGTAGCGAAATA

upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 5
gtaacctccaggagagacaattctcccagtgctctcagtcacggctgtgtttggttgttcgtttgttatatatcttatagctttcta---tttatttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTTGGTAGCGAGACA
  ||  | |       | |||  |     |   |  | |||      | |||  | ||||  ||  | ||||| |  |   |  | |   | |   | |||||||| || ||| |||| ||  | || |||||||||||||| |||||||||| ||||||||| | |
--aattttccttttt-ataatgttttatttatccaaaatcattttcctttttc-tagttcactttctttatatatcctgattacccaatttctgcctttttcagGAAATTAAAGTTCTTAGCCATCTGCAACATCCAAACATCGTGCAGTATTATGGTAGCGAAATA

upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 3
gtaacctccaggagagaca-attctcccagtgctctcagtcacggctgtgtttggtt--gttcg--tttgttatatatcttatagctttctatttatttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTTGGTAGCGAGACA
         ||   | ||  |||       ||   | ||  |    | | ||   ||  || |    || |  | | |       | |||| |  |||  || ||||| || ||| |||| ||  | ||  | ||||||||||||||||||||||||||||| || |||
-----aattagattatacttatttctttgctgtatttagctataaatatcttcaattcagtacaaacttatggttttttcctcttccttctttccattc-ttccagGAAATTAAAATTCTTAGCCAACTAAAGCATCCAAACATTGTGCAGTATTTTGGTAGTGAAACA

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|47831783|gb|CK121467.1|CK121467
EST:     TATTTCCTGATGACCCCAAATCCGCAGAGTGTATAAAGCAATTAGAGCAG                         GAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTT
genomic: TATTTCCTGATGACCCCAAATCCGCAGAGTGTATAAAGCAATTAGAGCAGgtaacctcca ... tttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTT
EST: gi|86058391|gb|DR354148.1|DR354148
EST:     TATTTCCTGATGACCCCAAATCCGCAGAGTGTATAAAGCAATTAGAGCAG                         GAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTT
genomic: TATTTCCTGATGACCCCAAATCCGCAGAGTGTATAAAGCAATTAGAGCAGgtaacctcca ... tttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttggttgttcgtttgttatatatcttatagctttctatttatttatttcagGAGATCAAACTTCTAAGTAACCTTCAACATCCAAACATTGTGCAGTATTTTGGTAGCGAGACA
                                  ctttctatttattt  CT-rich tract
               tttgttatatatctta  TA-rich tract