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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcggtatattcttctaacattttaactgacacatttatgaattttgttaagctgttgccatgttctgacaatgttaggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG

Basic information

species Glycine max
transcript GLYMA15G06380.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g31190.1 (Oryza sativa), 3'ss of exon 3
gttcggtatattcttctaacattttaactgacacatttatgaattttgttaagctgttgccatgttctgacaatgttaggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
        || | ||  || || | |||      | |  || ||    || |    || |  |||  | || ||||||  ||    | | | |     |||||||| || |||||||| || ||||||||||| ||  | ||||| ||||| || || || ||    |||||||||||||||||||||||||| || || |
-------gtacttttgcaatatataaac------aatagtgcataccctttac---ttactttgtgatcactatgttaaccttgcttcaatgg---cctagTTGGACATCATGGACAGGGGCACTGATGCTCGTAACTTTTTACTGGGAAATGTGATCCCCCTCAAGCTTGGTTATGTAGGTGTTGTAAATCGTAGCCAAG

upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 3
-gttcggtatattcttctaacattttaactgacacatttatgaattttgttaagctgttgccatgttctgacaatgttaggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
  ||   | |  ||  || |  || ||    |||  |||    ||  | |    |   |||||     || || | || | ||  |||| | |    |  ||||||||||||||||||| || |||||||| |||||  |  | || ||||| || || ||  |   |||||| ||||| |||||||| || ||||| ||| 
gtttttttttcctcgccttaatttctatgctacat-tttggccatcctatctctcctgtgccactcaatg-cagtctt-gtctgatgttgtgtttcttccagTTGGATATAATGGACAGGGGCACTGATGCCCGGAACTTTCTGCTGGGAAATGTGATCCCCTTAAAACTTGGCTATGTTGGTGTTGTTAACCGCAGCCAGC

upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 3
gttcggtatattcttctaacattttaactgacacatttatgaattttgttaagctgttgccatgttctgacaatgttaggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
|| |  | |  ||| || | |  ||  ||   | |||||    |  ||  || ||  | | || |||| || |  ||   || || || | |   ||  |||||||||| ||||||||||||||||||||||||||||   | || ||||||   ||||||||||||||||| || || || ||||||||||| ||||| |
gtgctattt-ctctcctcataagtttgctt-tagatttagctgtgatggcaaactact-ctat-ttctcacga--ttgctctatt-ttctctctgattcagTTGGATATTATGGACAGAGGTACTGATGCTCGGAATCACCTTCTGGGAAAAACAATTCCTCTTCGACTTGGATACGTGGGAGTTGTAAATCGTAGTCAAG

upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 3
gttcggtatattcttctaacattttaactgacacatttatgaattttgttaagctgttgccatgttctgacaatgtta--ggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
     ||  ||  | | |   |    ||       ||  |  ||     || || ||  |  | ||         |||     | || ||||   |  |  |||||||||| ||||||| ||||||||||||||| || ||  | || ||||| ||| |||||||||||||||| || || || |||||||||||  | ||||
-----gtgcatattcccag--tccagacatttgttttatttcatcaccataggc-gtccctgtctttcatgtgatttactatatgttattatcatgttttcagTTGGATATTATGGACAAAGGTACTGATGCTCGAAAACTCCTTCTTGGAAATGTTGTTCCTCTTCGACTTGGATACGTGGGAGTTGTAAATCGTTGCCAGG

upper sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 3
gttcggtatattcttctaacattttaa-ctgacacatttatg---aattttgttaagctgttgccatgttctgacaatgttaggctcttgtt--atttggaatgt-agTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
|| |  |||||     | |  ||||   || |   ||   ||   ||  ||   ||||| ||  ||| |||| |  | ||| |||   |     | ||| ||| | ||||||| || |||||||||||||| ||||| || ||| | || || |||||||| ||||| ||||||||||||||  |||||||||| ||||| ||||| |
gtgctatatatcaacttgatttttttgtcttatgaatgcctgtgcaacatttgcaagcttttatcattttctaatgaggtttggcaaataccccacttgtaatttcagTTGGACATTATGGACAGAGGTACCGATGCCCGCAATTTATTGCTTGGAAAAGTGATTCCCCTTCGACTTGGTTACATAGGTGTTGTGAATCGTAGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaagctgttgccatgttctgacaatgttaggctcttgttatttggaatgtagTTGGATATAATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCTCTTCGACTTGGTTATGTAGGTGTTGTAAATCGCAGTCAGG
                  ttctgac  putative branch site (score: 2)
                                     ttgttattt  TA-rich tract