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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcatttatacgtaactattattttaagggtataaaatgtctgaactgctaaagccctagcaatgatatttaactatcgttctctcttctgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGAGTAACTTCTGGAGTTGTCCGTGTTGGTGACAGAGTCAATGGACTACGCA

Basic information

species Arabidopsis thaliana
transcript AT2G31060.1
intron # 5
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 5
lower sequence: LOC_Os01g54910.1 (Oryza sativa), 3'ss of exon 5
---------attcatttatacgtaactattattttaagggtataaa---atgtctgaactgctaaagccctagcaatgatatttaactatcgttctctcttctgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGAGTAACTTCTGGAGTTGTCCGTGTTGGTGACAGAGTCAATGGACTACGCA
         ||| || |  |  | ||   | || | | | |||  |   | |  || |||| |||  |   |||   |  | | |   || ||  |||           |||||||| ||||||||    || || ||||| ||||||||| | |||||| ||||||  ||||| ||||||||||||||||||| |||  |||| || || |
caccctagaatttatcttaaatttacc--tcttctgaagatatttatgtaaggttgtactggtaattcttaagcggagccagtaattcatagtcttcta----------cagGTTTCCATGATGGAACGCGATTTTTATCTAGGACGAATACTGACTGGACGAGTAAGATCTGGGGTTGTCCGTGTTGGTGACAAAGTGCATGGTCTTCGTA

upper sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G128688_T02 (Zea mays), 3'ss of exon 5
attcatttatacgtaactattattttaagggtataa---aatgtctgaactgctaaagccctagcaatgatatttaacta-tcgttctctcttctgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGAGTAACTTCTGGAGTTGTCCGTGTTGGTGACAGAGTCAATGGACTACGCA
    |   ||| ||   |  ||    | | |  ||     | |   ||| |     ||||  |   || || |  |  || |  ||| || ||||  ||  |||||||| ||||||||    || || ||||| ||||| ||| | ||||| |||||||  || |||||||||||||||||||||| |||| |||| || ||||
--agaaggataagtccttgctacaccaggagcctagtcccaggaaggaaatctcccagccaaacacataatttgaaggtagtaattcacttttct--ttgacagGTTTCCATGATGGAACGTGATTTTTATCTAGGACGGATACTCACTGGGAGAGTAAGGTCCGGAGTTGTCCGTGTTGGTGACAAAGTCCATGGTCTTCGCA

upper sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 5
attcatttatacgtaactattattttaagggtataaaatgtctgaactgctaaagccctagcaatgat-atttaactatcgttctctcttctgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGAGTAACTTCTGGAGTTGTCCGTGTTGGTGACAGAGTCAATGGACTACGCA
 |||  |  |   |     ||   |||  ||| |    |       ||  |  |    ||     ||| | | || || | | ||   |  || ||| ||||||||||||||||| || || |||||||| || ||||| || |||||| |  ||   ||||| ||||| |||||||||||||  ||  ||||| |||| |
-ttctctcttttatgctctttgaattattggtttttccttgtacttcttttgcatgtatacttgggattagtgaaataccatgcttaatagtgcttttcagGTTTCAATGATGGAAAAAGATTTCTATCTTGGGCGAATTTTGACTGGACGCATATTCTCTGGGGTTGTTCGTGTTGGTGACAAGGTTCATGGATTACGTA

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|116424468|gb|EG467060.1|EG467060
EST:     GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTG                         GTTTCAATGATGGAGAAGGACTTCTATC
genomic: GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTGgtaatataaa ... tgatttccagGTTTCAATGATGGAGAAGGACTTCTATC
EST: gi|47832144|gb|CK121828.1|CK121828
EST:     GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTG                         GTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGA
genomic: GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTGgtaatataaa ... tgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGA
EST: gi|116457297|gb|EG499889.1|EG499889
EST:     GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTG                         GTTTCAATGATGGAG
genomic: GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTGgtaatataaa ... tgatttccagGTTTCAATGATGGAG
EST: gi|116457298|gb|EG499890.1|EG499890
EST:     GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTG                         GTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGA
genomic: GACATGTTCAGCCTCCAAAAGCAAACCTTGATGAGCCATTTCTGATGCTGgtaatataaa ... tgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgctaaagccctagcaatgatatttaactatcgttctctcttctgatttccagGTTTCAATGATGGAGAAGGACTTCTATCTCGGACGAATATTAACTGGAAGAGTAACTTCTGGAGTTGTCCGTGTTGGTGACAGAGTCAATGGACTACGCA
                                tcgttctctcttctga  CT-rich tract
                 aatgatatttaactat  TA-rich tract