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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttctaaatttccattatcttttactattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG

Basic information

species Oryza sativa
transcript LOC_Os11g28270.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G100794_T01 (Zea mays), 3'ss of exon 4
gtttgttctaaatttccattatcttttactattacttgt----tggactta-aggatagttc---attattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
||||||||| |||||| ||||   || |  ||   |       || |   | || || || |   ||| || |||||||| | ||||| |||||      |||| | |||||||||||  |||||||| |||||||| ||||||||||||||||| || |||||||| ||||| ||||||||||||||||| |||||||| ||||| | || ||||||||| |
gtttgttctgaatttctattacaattcataatgtttcacgatatgaatgcatagcatggtgccacatttttgtgcaacttttttgcaagatttgcgccgtttacttgaattttattactgcagAATGAAAAGGAATGTGCTTATTATTTAAGAACAGGGCAGTGCAAGTTTGGAAGCACATGTAAGTTTCACCATCCACAACCATCCACTATGATGGTTGCCG

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G146514_T03 (Zea mays), 3'ss of exon 4
gtttgttctaaatttccattatcttttactattacttgttggacttaaggatagtt--------cattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
||||||||| |||||| ||||   || || ||   |  |   |   | | ||| |         | ||  | |||||| | | ||||| |||||| ||  |||| | |||||||||||  |||||||| || || || ||||||||||||||||| || |||||||| ||||| ||||||||||||||||| ||| |||| ||||| |  | |||||||||||
gtttgttctgaatttctattacaattcacaatgtttcatgatatgaatgcatactattgtgccgcctttctatgcaacatttttgcaagatttgtgttgtttacttgaattttattactgcagAATGAAAAAGAGTGTGCTTATTATTTAAGAACAGGGCAGTGCAAGTTTGGAAGCACATGTAAGTTTCACCATTCACAACCATCCACCATGATGGTTGCTG

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 4
gtttgttctaaatttccattatctttta-ctattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
         | | ||    ||| |  || ||   || || | |  ||  |  |  ||  | ||  |   | |    | |||||||| |||  |||       | || ||   ||||||||||   ||||| ||||||||||||||||| ||||| || |||||||||| ||| || || ||||| ||||| || |||   |||| | || || |  
-------agataatttttctatttaatatctgacacctgattgtttt--gtttgattgctgatattaataatctaattcaatatttttttctgtt-------tctttttgatacagAATGAGCCTGAATGTGCTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCA

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA20G36140.1 (Glycine max), 3'ss of exon 4
gtttgttctaaatttccattatcttttactattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacc-taaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
              |   | |||  | |  |    | || |   ||  |  |  ||  | |||        | |   ||  | ||  | || || |  |   |  |  | |  |||||||||   |||||| |||||||||| ||||| ||||| ||||||||||||| ||| || || || || ||||| || |||  ||||| |||| |  |  
--------------tatttgatccctga--acctttcgtagacattttgcttgctttctgattgaaattaatgttctcataacttaatatatttccgatggttcctgattctgcagAATGAGCCTGAATGCACTTATTATTTGAGAACAGGACAATGCAAATTTGGGAACACTTGCAAATTCCACCATCCTCAACCAAGTAATATGATGCTCTCAT

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA18G47660.1 (Glycine max), 3'ss of exon 4
gtttgttctaaatttccattatctttta-ctattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG-
         | | |||   ||| |  || ||   || || | |  ||  ||    ||  | ||  |   | |    | | ||||||  |||  ||         || ||   |||||||||    ||||| | ||||||||||||||| ||||| || |||||||||| ||| || || ||||| ||||| || |||   |||| | || || |   
-------tgataattcttctatttaatatctgacacctgattgttttgtggg--attactgatattattaatctaattctatattttctttgttt--------ctttttgatacagaATGAACCAGAATGTGGTTATTATTTAAGAACTGGACAATGTAAATTTGGGAACACTTGCAAATTTCACCATCCTCAACCAAACAATATGGTGCTTTCCAT

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 3
gtttgttctaaatttccattatcttttactattactt-gttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
      ||| |||    |  | |||| |    || || | | |  ||  || |  |  |||| | | |   |    | |||| | | |   |  |  |   ||| |       |||||||||   |||||| |||||||||| ||||||||||| ||||||||||||| ||| || || || || ||||| || |||  ||||| |||| |  |  
------tctgaatcctga--acctttcatagatattttgcttgctttctggttgat--attaatgttctcgtaacttacaatgtatttccgatgtttcctgattctg------cagAATGAGCCTGAATGCACTTATTATTTGAGAACCGGACAATGCAAATTTGGGAACACTTGCAAATTCCACCATCCTCAACCAAGTAATATGATGCTCTCAT

upper sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 4
gtttgttctaaatttccattatcttttactattacttgttggacttaaggatagttcattattctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
          |  |  ||||  |     ||  | | | || |  ||   | |  ||   |    || || ||       ||  |  ||||   |       |||  ||     || ||||||  || || ||||||||||||||||| ||||||||||| ||||| || |||||||| ||||| ||||| || ||||||| || ||||||| |  
-------tgcacctgacattgccaaa-gctcctgcattttagtgtttgtgcttctttggtgggatgaaattttat----atcctgattttccctgttc---tttctttcgtgtagGATGAGATTGACTGTGCTTATTATTTAAGAACTGGACAGTGCAAGTTTGGAAGTACATGTAAATTTCACCATCCTCAACCATCTAGTATGATGGTTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctgcaacttctctgcaatatttgttttagttacctaaattttattaccacagAATGAGAAGGAATGCGCTTATTATTTAAGAACCGGACAGTGCAAATTTGGGAGCACATGTAAGTTTCATCATCCACAGCCATCTAATACGATGGTTGCTG
                                  acctaaa  putative branch site (score: 3)
                                         ttttatt  CT-rich tract
                  aatatttgttttagtt  TA-rich tract