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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcaagcacatttgcatatctgccaaatttgtgtgaactgagatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG

Basic information

species Glycine max
transcript GLYMA02G05440.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g03410.1 (Oryza sativa), 3'ss of exon 4
gtatga-tcaagcacatttgcatatctgccaaatttgtgtgaactgagatc-tatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
|||  | |  | | | ||   || |||    |||| ||||  | |  | |  |||   | ||  |   |  | ||  |  |||||   ||  |    |  ||||| || ||||| ||||||| ||| || || |||||||||||||| |||||||||||| ||||||| ||||||||||| |
gtagaaattgaacgctttca-atgtcttggcaattagtgtacattttggtgatatttcattacttctcaggtcatgtaagaatgtacctattttccttcccagAACTTCCTTTTCAAATCAACCAAGGAGGACTCACCTTTAAAGGCAACAGATTTTGGTCTGTCAGACTTCATAAAACCAG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G053868_T02 (Zea mays), 3'ss of exon 4
gtatga-tcaagcacatttgcatatctgccaaatttgtgtgaactgagatctatactactagatgct-atataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
|||  | ||||  || |     | | |||  |    ||  | | |  |   |||   ||||  | || |  | ||  |  | |||   ||  |    |  ||||| || ||||| ||||| | ||| || ||||||||  ||||||| |||||||||||||||||||||||||| || || |
gtagaaatcaaatacttcaatctctttgcaca--cagtaagcatttggtgatatttcactacttcctcaggtcatgtaagactgtacctattttccttcccagAACTTCCTTTTCAAATCGAACAAGGAGGATTCACCACTAAAGGCGACAGATTTTGGTTTGTCAGATTTCATTAAGCCAG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G36070.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtatgatcaagcacatttgcatatctgccaaatttgtgtgaactgagatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
    ||| |||  ||     ||  ||   ||   || |||      |  |  |  |  |  ||  ||    |  |  ||| | ||| |    | ||  ||  ||||||||||| || ||||||| | |||||| |||| || ||||||| |||||||||||| |||| || |||||||| || |
gtaggtacgattcagtttgattcaatgcttg--gaaattgcaaatccatatgtgaaagcatcttcatcactttaagaagagttatgatcc--cttaccctctcagAATTTTCTGTTCAAATCAACCGAAGAAGGTTCATCTCTAAAGGCTACAGATTTTGGTCTGTCGGACTTCATAAAGCCAG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 4
---gtatgatcaagcacatttgcatatctgccaaatttgtgtgaactgagatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
   |  | || |  | |||   ||| | | |  ||| ||| | |  ||     | || |   |  |  | | |  |  | ||||      | ||  ||   ||||||||||| || ||||||| | |||||||||| ||| |||| || || ||||| ||||| || || |||||||| || |
gtagcttaattactc-catcatcatgttt-ctgaatgtgtat-agttgg---ttttattcacaagtattgttt--tttactaat-----catcttctcaaacagAATTTTCTGTTCAAATCAACCGAAGAAGATTCGCCTCTAAAAGCTACTGATTTCGGTTTATCTGACTTCATAAAGCCAG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 4
gtatgatcaagcacatttgcatatctgccaaatttg-tgtgaactgagatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
|||| || |||     | ||| |  |   || ||||   | || |   | | ||  | |   ||| |   |     |   || |||||| |    | || ||||||||||||| || |||| |||||| || || ||||| |||||||| ||||||||| | ||||| |||||||| ||||
gtataatgaagtttgctggcacacatcaaaattttggctttaatttgtagccattatgcctaatggtgcttcccttac--atttttttatcg---catgtagAATTTTCTTTTCAAGTCAACCAAAGAGGACTCGCCTTTGAAGGCCACGGATTTTGGTCTATCAGACTTCATAAAGCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctatactactagatgctatataatagattaatgtttttacctattcttgcagAATTTTCTTTTTAAATCAATCAAAGAAGATTCACCTTTAAAGGCCACAGATTTTGGTTTGTCAGATTTCATAAAACCTG
                            gattaat  putative branch site (score: 3)
                                    tttttacctattctt  CT-rich tract
                   tatataatagattaat  TA-rich tract