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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttatttgatcccatttgaatgttctttcctaattctgtttcttcacttttgataatgtattttattatttttcatgtttatataatgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG

Basic information

species Glycine max
transcript GLYMA17G33880.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os06g44030.1 (Oryza sativa), 3'ss of exon 13
-----gtatgtttat-ttgatcccatttgaatgttctttcctaattctgtttcttcacttttgataatgtattttattatttttcatgtttatataatgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG
       ||  |||  ||   |  ||||  || |  |||  |     | |   ||  |   |||  || |  ||| | || | |  | |||||    | |||||||| |||||||||| ||| | ||||| ||||||||||| ||||| || ||||| |||||  |||||||||| || 
gtaaaacatccttacattttgcttattttcatatagtttgttttccttttcgtttttcaactgaacatatcgttt-tcatatatattttttattccttacagTTCGACTATGGAGTACCAAGTTGAATGCTAATCTTGTTTGCTACAAAGGACACAACTACCCTGTTTGGGATGTACAA

upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G376959_T01 (Zea mays), 3'ss of exon 6
---gtatgttt---atttgatcccat-ttgaatgttctttcctaattctgtttcttca-cttttgataatgtattttattatttttcatgtt-tatataatgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG
    ||  | |   ||   |  |  | || ||| ||  |  | |    | | | || | || |   | |  | | | | |  | |     || ||| |  | ||||  || ||||||| || ||||| |||||||||||||| |||||||| || || ||||||||| |||||||||| || 
gtaatacatctcacatcatagacagtgtttaatttttgtagcaatccttatatttttatctgtcttttaaatttatcactgctatcttcattgtatttgttacagTAAGACTATGGAGCACCAAGCTGAATGCCAATCTTGTCTGTTACAAAGGACATAATTACCCAGTTTGGGATGTCCAA

upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G347339_T01 (Zea mays), 3'ss of exon 6
---gtatgtttatttgatcccatttgaatgttctttcc-taattctgtttct-tcacttttgataatgtattttattatttttcatgtttatataatgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG
          |||| ||     ||| | | || |  |  |  || | ||| | ||  | ||   ||| |||        | ||||| | ||| |  | ||||  || ||||||| || ||||| |||||||||||||| |||||||| || || ||||||||| |||||||||| || 
acatctcacatattagacagtgtttaatttttgtagcaatccttatatttgtatctgtcttttaaatttatcactgctatcttcat-tgtatttgttacagTAAGACTATGGAGCACCAAGCTGAATGCCAATCTTGTCTGTTACAAAGGACATAATTACCCAGTTTGGGATGTCCAA

upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv04s0008g05780.t01 (Vitis vinifera), 3'ss of exon 13
-------------------------------------------------gtatgtttatttgatcccatttgaatgttctttcctaattctgttt-----------cttcacttttgataa-tgtattttattatttttcatg-tttatataa-tgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG
                                                  | |   | |||    || ||      ||||| ||||  | || ||           |  ||  ||| | || |   ||| | |        |  |||| |  | |||||||||||| ||||| ||||| || ||||| ||||||||||| ||||| |||||||| |||||  ||||||||||||||
gtacttgttccttgattcttatcttattgctttttcatctatcatttttctttcccttttttgctcccttgttccattcttgcctacatttggttataagaaatagccccaagtttaaaaactacttttgactgaaaaaagtactttacaccactgcagTTCGATTGTGGAGCACAAAACTAAATGCAAATCTTGTTTGCTACAAAGGTCACAACTACCCTGTTTGGGATGTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttcttcacttttgataatgtattttattatttttcatgtttatataatgcagTTCGATTATGGAGTACAAAGCTTAATGCCAATCTTGTTTGTTACAAGGGTCACAATTACCCAATTTGGGATGTTCAG
           ttttgat  putative branch site (score: 4)
           ttttgataatgtattt  TA-rich tract