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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatactctcttgtgtgatatctggtttagaactccttatgtcaatgcaagtatcttagtaaagagatcgatttttatattttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCTCATGAACGTGTGTTTTCCACAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G65700.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G65700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G18410.2 (Glycine max), 3'ss of exon 3
gtatgttatactctcttgtgtgatatctggtttagaactccttatgtcaatgcaagtatcttagtaaagagatcgattttta-----tattttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCTCATGAACGTGTGTTTTCCACAAAG
        ||  || | || |   | |    |||   ||  || |||      |||| || | |     |  || | ||  |     | ||| |||||||||| || ||||||||||||||||| |||||||| || |||||||| || |||||||| || | ||| ||||||
-------gtaagctttagtatatgaacaaaatta---ctgtttgtgtgttaataagtgtcattgctctaacttctaattacaatgcttttttgttcagGGAGTCCTGAAAGGTTTTGACCAGGCAACAAATATTATTCTTGATGAGTCCCATGAACGGGTTTATTCTACAAAG

upper sequence: AT1G65700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G40590.1 (Glycine max), 3'ss of exon 3
gtatgttatactctcttgtgtgatatctggtttaga--actccttatgtcaatgcaagtatcttagta--aagagatcgattt--ttatatttt-ttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCTCATGAACGTGTGTTTTCCACAAAG
||| | | || | | |  |   | ||  | | | ||  | |  |  |||      |||| || | |    ||    || ||    | |  |||| |||||||||| || ||||||||||| ||||| ||||||||||| |||||||| || |||||||| || | ||| || |||
gtaagctttagtatataat-caaaattagctcttgattatttgtagtgtgttaataagtgtcattgctctaacttctcaatacaatgactttttgttcagGGAGTCCTGAAAGGTTTTGATCAGGCAACAAATATAATTCTTGATGAGTCCCATGAACGAGTTTATTCTACCAAG

upper sequence: AT1G65700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv16s0039g00240.t01 (Vitis vinifera), 3'ss of exon 3
gtatgttatactctcttgtgtgatatctggtttagaactccttatgtcaatgcaagtatcttagtaaagagatcgatttttatattttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCTCATGAACGTGTGTTTTCCACAAAG
||||||||||     ||   | |   | |    || | |  |||||  |   |   ||| || |||  || || | |||     |   || |||||||||| || || |||||||||||||| ||||| || ||||||||||||||||| ||||| |  |||||||||
gtatgttatatagaattaattcaatgcagtgacagcattttttatggtaggtc---tatatt-gtattgacattggttt-----tccgtttagGGAGTTCTAAAGGGCTTTGACCAGGCTACCAATATCATTCTTGATGAATCTCATGAGCGTGTTTACTCCACAAAG

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|125015910|gb|EL088179.1|EL088179
EST:     CGCAACATTGTG                         GGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCT
genomic: CGCAACATTGTGgtatgttata ... attttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCT
EST: gi|152038480|gb|AV824046.2|AV824046
EST:     AGATTATTTCGGTGATTACAAATGACGGACGCAACATTGTG                         GGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCT
genomic: AGATTATTTCGGTGATTACAAATGACGGACGCAACATTGTGgtatgttata ... attttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCT
EST: gi|124771105|gb|EH861235.1|EH861235
EST:     AGATTATTTCGGTGATTACAAATGACGGACGCAACATTGTG                         GGAGTTCTTAAAG
genomic: AGATTATTTCGGTGATTACAAATGACGGACGCAACATTGTGgtatgttata ... attttttcagGGAGTTCTTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttatgtcaatgcaagtatcttagtaaagagatcgatttttatattttttcagGGAGTTCTTAAAGGTTTTGACCAGGCTACAAATATAATCCTTGATGAATCTCATGAACGTGTGTTTTCCACAAAG
                                      tttttatattttttc  CT-rich tract
                               agatcgatttttatat  TA-rich tract