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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatgaaaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA

Basic information

species Arabidopsis thaliana
transcript AT1G62020.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G62020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g50350.1 (Oryza sativa), 3'ss of exon 2
gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatgaaaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                                     |  ||   |||    | | || ||   |        |  | | | ||  || | |    |||  |  || | | | ||  ||  |   | |   | | |  |  |||| || || |||||||| || ||||| ||||| || || ||||||||||| || | ||| |||||||||||||| || ||||| || || || ||||| ||
-----------------------------------------------------gcaaactttgtgg--ggtgtggaacattcacttccactatcaccattgcattattt---aaagggataataggtgatg-caatctaaatgtgctgttttt-tgacagACACCAAGGCTTGGGAAGTTGATACTTTGCGGGGGCACATGAATAACGTGTCCTGTGTGATGTTCCATGCAAAGCAAGACATCATAGTGTCCAACTCAGA

upper sequence: AT1G62020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G04290.1 (Glycine max), 3'ss of exon 2
gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatgaaaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                  |||||  |||| || ||   |  |  || |     |    | ||  ||  | ||          || | |||   ||  ||           |||   ||| || ||||   |  |    || |||| || || || ||||| ||||||||  || |||| || |||||||| ||||||| ||||||||||||||| ||||||||||| ||||| ||||| |||||
---------------------------------ctttttgcatgc-attaactttttagtatttagtaaaccaaataaagtttagtat---------ttttggtgaccttctcaa-----------agtccctaatatattttc--ccgt----tttcagACACCAAGGCATGGGAAGTGGATACTCTGAGAGGACACATGAATAATGTTTCATGTGTTATGTTCCATGCCAAACAGGACATCATTGTGTCAAATTCTGA

upper sequence: AT1G62020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G12080.1 (Glycine max), 3'ss of exon 2
gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatgaaaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                     ||  |||| || ||   |  |  || ||| | |    ||||        |||  |   |  ||   |||   ||  ||           |||   ||| || ||||   |  |    || |||| || || || ||||| ||||||||  || |||| || |||||||| ||||||| ||||||||||||||| ||||||||||| ||||| ||||| |||||
-----------------------------------gcttgcatgc-attaactttttagtat-ttagtaaaccaaaaa--------atgtttggtttttttattgaccttctcaa-----------agtccctaatattttttcccctgt----tttcagACACCAAGGCATGGGAAGTGGATACTCTGAGAGGACACATGAATAATGTTTCATGTGTTATGTTCCATGCCAAACAGGACATCATTGTGTCAAATTCTGA

upper sequence: AT1G62020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G33270.1 (Glycine max), 3'ss of exon 2
gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatgaaaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacga-gttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                                      | |||  |   |   |||  |   | || || |||| |||| | |    ||    | ||  | |||  |     | || |||    ||| |  |  |||  |  |||| || || || ||||| ||||| || ||| |||| || |||||||| ||||||| ||||||||||||||| |||||||| || ||||| ||||| |||||
------------------------------------------------------taaatcttaagatgtataccatgtt-ttttggatgcgttaaacttgtagtg---tttgaggtggcattgtttttgctgttaatg-atttatttctctattgt--cagACACAAAGGCATGGGAAGTGGACACCTTGAGAGGGCACATGAATAATGTTTCATGTGTTATGTTCCATGCCAAACAGGATATCATTGTGTCAAATTCTGA

upper sequence: AT1G62020.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 2
gtaattatttggtggtatacttttgtgcttacaatttttatatgctatcaatcgtcaatgatgttactgatatga-aaatattctgcatgccttaatccttagatgaatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                         |||| || ||   | |||  |||    ||| ||   |||| |  || ||   || |  ||           |    |||  |  |  |||  | |  ||| | |  | ||    || |||| || || || ||||| ||||| || ||| |||| || |||||||| ||||||| ||||||||||||||| || ||||| || ||||| ||||| || ||
---------------------------------------ggatgc-attaaatataaatattgtgg--gatgtggcgaataataagcttg---tagtgtttga---------ggtgctgcttatgct-gttaatgatttgtatct--ctat----tttcagACACAAAGGCATGGGAAGTGGACACCTTGAGAGGGCACATGAATAATGTTTCATGTGTTATGTTCCATGCCAAGCAGGATATCATTGTGTCAAATTCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctcgaaattgcaaagacgagttggtaacatgtttttaacgatatcattgcagAAACTAAAGCTTGGGAGGTGGATACATTGCGAGGCCATATGAATAACGTTTCATCTGTTATGTTCCATGCAAAACAGGACATAATTGTATCAAACTCTGA
                                   ttttaac  putative branch site (score: 2)
                           taacatgtttttaa  TA-rich tract