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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG

Basic information

species Glycine max
transcript GLYMA08G05700.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 3'ss of exon 4
------------------------------gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaaca----tacttggtgtat------tgaaatat----gcat---gtaat-tttaaatttatttcct---------ttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
                              |  |  || || ||| ||  |||||  ||   |   |   ||||  ||  | ||||  | ||    |  || | | ||      | | | ||    ||||   || || | |  |||||| |  |         ||||||||||||| || |||||||||||||||||  | ||||| |||||||||||  |||| || || |||||| | ||||| ||||||||||||||||| |||||||
gtaagggaatttccatttaacatggtgatggctatattattttttcttccaacattgttatattactatgatatgtttggatcaatgtagcaacagtgttttgagaatgttctcttagacattgtcgcattaggtgatatcttgatttatattttgtcattggcttttgcagTACACCCCTGCAATTGATATTTGGAGTGTAGGATGTATATTTGCAGAGCTGCTTACAGGAAAGCCACTCTTTCCAGGGAAAAATGTTGTGCATCAATTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g45620.1 (Oryza sativa), 3'ss of exon 3
gtaagtttcttcttttttttaacatcttttcttgggttgaatata---atttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
      | |     | ||  |  |||  | | |  | | |  |||   ||||    ||||  | || |        ||| |  || |   |||  | |||| | |||    ||||||||||||||| |||||||||||||||||| | || || |||||||| |||||||| |  || |||||| | |||||||| || ||||| || || |||||||
-----atgccatgctcttgaactatcgatacatatgcttagcataccaatttggataatttcaaatgcac------ttgcaccatac---taaactcaaatgtgttt----tttgcagTACACTCCTGCAATTGATATTTGGAGCGTCGGTTGTATATTTGCTGAAATGCTTATGGGAAAGCCACTTTTTCCTGGAAAGAATGTGGTACATCAATTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
gtaagtttcttcttttttttaaca-tcttttcttgg-gttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttat--ttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
              |  || |||| | | | | | | || || | | || ||  ||  |     |||    | ||| |||     ||     || | ||| |    ||   |||||||||||||||| || ||||||||||||||| | || || |||||||| ||| ||||||| ||||||||| | ||||| ||||| ||||||||||| || ||||
--------------tacttgaacagtgtgtacatagtgtggagtttgatgtat-cagcttgttttacaaattttatagaat----cacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
||||  | |   | | | ||  | | ||| |    ||||  | | ||| |   | |   |||            |||  |    | | | |     |||  |||| ||  ||||||| ||||| || |||||||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||
gtaaaatgcaattctctattttcttttttgcaaaagttg--tctgattcacatattatgaca----ccacaacctgaggttaaaacggatt-----attgctttctttgctgcagTATACTCCTGCCATTGATATATGGAGCATAGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttcctttt--tgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
        |   ||| | | ||   ||  |||   |||   ||   | ||  ||| ||  ||   |  |    ||  | ||   || | ||  ||| | || ||        | ||||| || || || ||||||||||||||| |||| ||||||||||| ||||||||    ||||||||  | |||||||| |||||||| || ||||||||||
-------ccacttttgtatgaaggcctgctct--agttagcta---tcta--caagtgtgcaggataag---gtttgattacagatctgatgctaactctacttttgcgaaatacagTATACCCCTGCGATTGATATTTGGAGCGTTGGTTGCATATTTGCTGAAATGCTATTAGGGAAGCCGCTATTTCCTGGCAAAAATGTGGTTCACCAATTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------gtaagtttcttcttt--------tttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttccttt---ttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
                                  |  | ||    ||          |  ||    | || | ||  || ||||||  ||   |   ||  | |   ||| || |    |  |  ||| | |   ||| | || |    ||   || ||||| || || || |||||||| |||||  | || ||||| ||||| ||||||||    || ||||| |||||||| |||||||| ||||||||||||||||
gtaagattctttttcaccaaacccaactactcttgctatttctccctaccaggaaaatgcttctagttttctattttgtagaatattgtt-gtgtggttctatagtgttgttg-agaagaccagccatctcaagctaagtctactcttgttatatttcagTATACCCCTGCGATTGATATCTGGAGTGTCGGTTGCATTTTTGCGGAAATGCTTTTGGGTAAGCCTTTGTTTCCCGGGAAAAACGTTGTGCACCAATTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattt--taaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
            |||  |  || ||    |||| |||| | || ||||||||    || |  ||  || | |||| || |||  ||  |||||  ||||    | ||| |||| ||||||||||| || ||||||||||||||||| ||||||||||||||||||||||| || || || ||  ||||||| ||||||||||| |||||||| ||||
----------cttttgatgaaatatgacctctttggttta-taaaatttaag----tggagtta--tgttttattaaactatatatcaaatttcttaaaaccttctccatttttcagTACACTCCTGCGATTGATATTTGGAGCATAGGATGCATATTTGCAGAAATGCTTACAGGAAAACCGCTGTTTCCGGGGAAAAATGTAGTGCACCAGTTGG

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ26549 (Selaginella moellendorffii), 3'ss of exon 4
gtaagtttcttcttttttttaacatcttttcttgggttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
                                                   | ||  | | ||   ||||  |||      |   | | |    || |  || || | | ||||||| ||||||||||| || || ||||||||||| ||||||||||| || |   ||||| |||||||| |||||||||| || || |||   || ||  | |
---------------------------------------------------gtaagaggatat---tggttcatt------tttttctgacgccaagtg-atctcttgtatgcagTATACTCCAGCAATCGACATATGGAGCATTGGTTGCATATTTGCTGAGACAATCACTCGGAAGCCACTGTTTCCTGGAAAGAACGTTACTCATCAGCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catacttggtgtattgaaatatgcatgtaattttaaatttatttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
                                     tttatttcctttttgc  CT-rich tract
         tgtattgaaatatgca  TA-rich tract