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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA

Basic information

species Arabidopsis thaliana
transcript AT1G79990.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
||||      |||| ||| | || ||    ||| |     |||  |   |  |   || ||        || |  | || || | |     ||||  |  |   | ||   ||  | | |  || |  | |   ||| | |||||||||||||| || ||| | |||||| | ||| | || |||||| |||| ||||| || ||||||| ||| |||||||| |||||||| |||
gtaaacagaagatcctttgc-at-tctgcttttgtgttgcattgtaatcaattgcttttac--------tactgttctgcgtcactcctcctttcaatttt--ttaacaccatt-cgacattttatgatatgt-agGATGGTAATTGGTTATGATGAGGGAACTATAATGATAAAAATGGGACGTGAAGTACCTGTGGCAAGCATGGATACCAGTGGAAAAATCATTTGGGCAAAA

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
                          || | ||  || | ||| || | || |    | | ||  | |||   |  || |     ||  ||  |   ||| |  | | || |||| ||||  || | ||| |  |||||||| ||||| ||||| |||||  | |||||| | ||| |||| |||||| | || || ||||| ||||||| ||| ||||||||||| ||||| || 
--------------------------aagaatttctctc-attgaa-acatgttgtgtgagattttcattgacttgttct-----ttcctgcataagtca-agttaatgatatgg-aatattttat-tttgtgtagGGTTGTGATTGGATATGATGAAGGGACAATAATGATAAAAATTGGTCGTGAAGTTCCTGTTGCTAGCATGGATAGCAGTGGAAAAATTATATGGGCAAAG

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatata--tcttcacatcataattatttc---tttgtgtaaatttatgtttccttcat--aacttacgagatggcaataccttgtctttttc-------------cagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
|||||||| |  |   |     | |    ||| ||| | || || |  | | ||   | |   ||  |  | | |       ||||  || || ||  |   | ||  || || |        ||  | ||     | ||             ||||||||| ||||| ||||| |||||| | || ||||| |||||||| || ||| | || |||||||| ||||| |||||||| |||||||||||| |||| 
gtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacagGGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGAAGTTCCTGTGGCTAGCATGGACAACAGCGGGAAAATTATTTGGTCTAAG

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 9
gtaagttt---ctgatcttttactatgtcaatatttattcc--ctattaaagatatatatcttcacatcat----aattatttctttgt-gtaaatttatgtttccttcataacttacgagatgg-caatacctt-----gtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
||||||||   |||       | | ||| | || ||  |    |  || || |     |     | |   |    |||| |  ||   |  | || || | ||  ||| |   |||     ||   ||| |  ||     |  ||    ||||||||| ||||| ||||| |||||| | || ||||| |||||||| || ||| |||| |||||||| ||||| ||||| || |||||||||||| |||| 
gtaagttttttctggatagaaattttgtaagtaatttcttaggccgttgaataatctgagtgggaaactgtgtcaaattgtgcctgaattatgaaattttcttatctttaactcttttctcataatcaaaattttcgggtgcattcaaacagGGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGAAGTACCTGTGGCTAGCATGGACAACAGTGGGAAAATTATTTGGTCTAAG

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
                      || | |   |||||  || ||           ||||| | | | || |   | | | | |   ||      | |||| | || ||  |  |  ||| ||||  | | ||| ||||||||| || || ||||| |||||  | || ||||| ||||||||||| |||  ||| || || || ||||||||||| || ||||| ||||||||||| 
----------------------tgccgaatattatttactttt-----------tcttctcttgagaaatcagtgtctctctcttttccctccttcttcgtgaccta--aattaccaaaacctc-tttctttgcagGGTTGTGATAGGCTATGATGAAGGTACTATTATGGTCAAACTTGGCCGAGAAGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAG

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
                      |||||  | ||     || ||     | ||   |  |||   ||| ||| |   | |  ||     |          ||  |||  |  ||| | ||   |  |||   |||||||||||||| || ||||| ||||||   || ||||| ||||||||  | ||| | || ||||| |||||||| ||||| |||||||| || |||||||| 
----------------------tgtca-cacttcacttctcttgttcctgta-gccagcactaaatatttagtatatggcttaggagaa----------atggctt--ggaatgactattattgctctccatccagGGTTGTAATCGGCTATGATGAAGGAAGTATTATGGTAAAACTTGGTAGAGAAGTGCCTGTGGCAAGTATGGACAACAGTGGAAAAATAATATGGGCTAAG

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
                          || || ||     ||||    |||  | |  |||||   |    || |  |||      | |||| ||  |||| |  |     | |     | | ||     ||| ||||||||| || |||| ||| |||||| |||| ||||||||| |||| || ||   |||||| |||||||||||||| || ||||| || || |||||||||
--------------------------aaaatataggtt-tattttgaataattgttatcacactctctcaatatagttgc-----tgtatgctttattcacatgt----ggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA
                    aacttac  putative branch site (score: 2)
                                     taccttgtctttttcc  putative PPT
     ttatgttt  TA-rich tract