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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG

Basic information

species Arabidopsis thaliana
transcript AT5G04360.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: LOC_Os04g08270.1 (Oryza sativa), 3'ss of exon 12
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                               || |||          | |  ||| ||  | ||   |  |         |   | |||     |||  |  |   ||  ||| || |||  |  |||  |||   |  |||| || || |||||||||||||| |||||||| ||  | || || ||||||||||||||||| || ||||| ||||| ||||| || | 
-------------------------------atgtgttacagtgttcaatctaaattatagttaaaagaaa--------aaggatgttaatagcagtttacattattttgaattttcatac-tcctata-tgctctttcagGGAATACCTTTCTTCCATGCTGGTGATGAGATACTGAGATCTAAGTCACTTGATCGAGATTCATATAACTCTGGTGATTGGTTTAACAA

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GRMZM2G158043_T03 (Zea mays), 3'ss of exon 21
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttct-gttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG-----------
                                    |  ||||   |  || || ||     |     ||| |   |   ||  ||  |     | | | |||||  ||    | | | ||||| ||  | || |  |  |||| || ||||| || |||||||| |||||||| ||||| || || || |||||||||||||| ||  |||| ||||| ||||| || |            
------------------------------------tgtactatatg-ttgtaacct-----tttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAAGTATTACTCTA

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GRMZM2G158043_T02 (Zea mays), 3'ss of exon 21
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttct-gttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                                    |  ||||   |  || || ||     |     ||| |   |   ||  ||  |     | | | |||||  ||    | | | ||||| ||  | || |  |  |||| || ||||| || |||||||| |||||||| ||||| || || || |||||||||||||| ||  |||| ||||| ||||| || | 
------------------------------------tgtactatatg-ttgtaacct-----tttcatgcattgaccaataacttagcatttggaatgggtttctcatttttgtatcattatgtatttatgtgtacttccagGGAATACCATTTTTTCATGCTGGTGATGAGATACTACGATCTAAGTCGCTTGATCGAGATTCATATGACTCTGGTGATTGGTTTAACAA

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA10G34080.1 (Glycine max), 3'ss of exon 22
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                        |||   ||||| |  |  |    ||||    ||  |  ||      ||        ||| | ||  |   |||  |||   || | ||     | |  || | ||||        ||||||| ||||| || ||| |||| |||||||| || ||||| |||||||| ||||||||||||||||| || ||||| |||||||| ||
---------------------ctgcttccctatattttaataaccaaactgattgcttagattataatagac--------aatttcttttagtgagtctattctggtgctaa-----agaatttctgttctt-------agGGTATACCATTTTTTCATTCTGGAGATGAGATACTCCGCTCAAAATCACTGGATCGAGATTCTTACAATTCTGGTGATTGGTTCAACAG

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: EFJ37579 (Selaginella moellendorffii), 3'ss of exon 21
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                                                                                             |  ||| |||   ||   || ||| |  | || |   ||    | | |   ||||| |||||||||||||| || || || || |||||||| ||||||||||| ||||||||||| || || ||||||||||||||
-------------------------------------------------------------------------------------------gtagatagcttttgattt--atgttatttcgcttaaccatgtcaatcagGCA-ATTCCTTTCTTCCATGCTGGAGAGGATATGCTTCGCTCGAAGTCACTTGATCGCGATTCTTACAATTCGGGAGACTGGTTCAATAG

upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: EFJ34076 (Selaginella moellendorffii), 3'ss of exon 21
gttctctactgtattccaacttaacttagttatatgtagactaagggactgcaaactacggctagtgggcactattctcgaatctattacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                                                                                             |  ||| |||   ||   || ||| |  | || |   || |  | | |   ||||| |||||||||||||| || || || || |||||||| ||||||||||| ||||||||||| || || ||||||||||||||
-------------------------------------------------------------------------------------------gtagatagcttttgattt--atgttatttcgcttaaccatgtaaatcagGCA-ATTCCTTTCTTCCATGCTGGAGAGGATATGCTTCGCTCGAAGTCACTTGATCGCGATTCTTACAATTCGGGAGACTGGTTCAATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacaccaagtagatttctgttcaaatcttaatatgttttattctgcatgtaaagGGTATTCCATTCTTCCATGCTGGGGATGAGATTCTACGCTCGAAATCACTTGATCGAGATTCTTACAACTCCGGTGACTGGTTCAATAG
                          tcttaat  putative branch site (score: 3)
                    ttcaaatcttaatatg  TA-rich tract