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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcattttctgtcacggaaacagcatatgttgaaaactttcccttgaatctcgcaagtctatcgattatgagcgttacgttggattggaagatcttaccttggctgctttattagctcttgcaacttttatctgtagtttggtgtaagcatttactttaagagtaatattttaatgccggtgtatgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG

Basic information

species Arabidopsis thaliana
transcript AT1G60995.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 8
gtttgtcattttctgtcacggaaacagcatatgttgaaaactttcccttgaatctcgcaagtctatcgattatgagcgttacgttggattggaagatcttaccttggctgctttattagctcttgcaacttttatctgtagtttggtgtaagcatttactttaagagtaatattttaatgccggtgta-tgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG
                                                                                      | ||   | ||   |||| |     | ||||   | ||||   |  ||||| || |||  | |  || | |   ||||   | || | ||    |   |||  ||||||||| || ||||||||||||||||| ||  | |||||||| ||||| |||||||||||||| |||||||| ||||| ||  || ||||||| ||| | ||
------------------------------------------------------------------------------------cagctt---acatgccacct-gataattctatt--ttgttgcctttcatatct-tattttcatttctgcgtat---ttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG

upper sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G19970.1 (Glycine max), 3'ss of exon 8
gtttgtcattttctgtcacggaaacagcatatgttgaaaactttcccttgaatctcgcaagtctatcgattatgagcgttacgttggattggaagatcttaccttggctgctttattagctcttgcaacttttatctgtagtttggtgtaagcatttactttaagagtaatattttaatgccggtgtatgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG
|||||  | ||| |    |         || || |  |       ||    || |    ||  | |   | |||| |   || ||  ||| ||   |||   | ||  |||   || |    |   ||||  ||    | | |||   |||  | | || |     ||   |||||       |  | |||||| ||| | || || || |||||||| || ||||||||  | ||||| ||||| || ||||||||||| |||||||| |||||  |||| ||||| |||||
gtttgctaatttatccttc--------tatttgcttgag----caccccatatttgaagagattgttt-tcatgacctcaacatt--atttgagtttct---cctgtttgcccaataa---ttcagaactcctactgttggcttg---taacaactaacat-----gtgtcatttt-------gcctgtgcagACTACCTTGTAACAAAGTGTGGTGTGCTGATGATGTCCTTGTTTGTATTTTTTACTACCACAATGTCAGTATCATTTACATTAAGAGAAACACAGACTCG

upper sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtcattttctgtcacggaaacagcatatgttgaaaactttcccttgaatctcgcaagtctatcgattatgagcgttacgttggattggaagatcttaccttggctgctttattagctcttgcaacttttatctgtagtttggtgtaagcatttactttaagagtaatattttaatgccggtgtatgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG
                                                                                    |  |||  ||     | ||   | |||||||||   |     || ||| || | | | |      | |  || |    |    |  | |||   |     | | |||||| ||  ||||||| || |||||||| || |||||||| || ||||| || ||||||||||||||||| || ||||| |||||  ||||||||||||| ||
------------------------------------------------------------------------------------tatattttaaa----tgccggagttgctttatttatt-----aattttaatttttgggtaaaaaaatgttttgagacaagttatgctttttggttttgtttttgtgcagACTATCTGGTGACCAAGTGTGGTGTGCTTATGATGTCGCTATTTGTTTTCTTCACAACCACAATGTCGGTTTCATTTACATTAAGAGAGACACAAACCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttggtgtaagcatttactttaagagtaatattttaatgccggtgtatgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG
                                  ttttaat  putative branch site (score: 3)
               atttactttaagagta  TA-rich tract