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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttatagccctttaaggaatgtgtacaagtttggagtgtcatttagtttgatgttgtcccatttccagtgcctcacaatcttattcactcccttgttagGTTCGAGGCTCCATTCCACTTCTCTGGGAGCAAATAGTGGATTTAAGCTACAAACCATGTCTCAACATAATTGAACATGAGGAAACG

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G047894_T03 (Zea mays), 3'ss of exon 8
gtttatagccctttaaggaatgtgtacaagtttggagtgtcatttagtttgatgttgtcccatttccagtgcctcacaatcttattcactcccttg--------ttagGTTCGAGGCTCCATTCCACTTCTCTGGGAGCAAATAGTGGATTTAAGCTACAAACCATGTCTCAACATAATTGAACATGAGGAAACG
    |||  | |||||      |  |    ||| || |||  |||| ||      |||||||||| || ||| | |||| |||| ||  |||||||        |||| ||||||| || ||||||||||||||||||||||||||||||||||||||||||||| | || | ||| ||||||||||| ||||| 
---gatacacatttaattgtccttgaatgttttagaatgttgtttacttg-----tgtcccattttcaatgctttacaagcttactcgttcccttgctattttgttagCTTCGAGGTTCAATTCCACTTCTCTGGGAGCAAATAGTGGATTTAAGCTACAAACCACGGCTTAGCATTATTGAACATGAAGAAACT

upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv08s0105g00480.t01 (Vitis vinifera), 3'ss of exon 9
-gtttatagccctttaaggaatgtgtacaagtttggagtgtcatttagtttgatgttgtcccatttccagtgcctcacaat--cttattcactcccttgttagGTTCGAGGCTCCATTCCACTTCTCTGGGAGCAAATAGTGGATTTAAGCTACAAACCATGTCTCAACATAATTGAACATGAGGAAACG
  |||| |     |  | |  | | | ||  | |    ||| | |  |   ||   |       || || ||| | ||||   ||   | |     ||   |||||||||| || |||||||| |||||||||||||| || ||||| |||||||| ||| | || |  || ||  | |||||| |||| 
aattta-atttaatataagcctatattcatctctcatttgttaat--gcaagacaataaatatgtttcaatgcatgacaagtactgtcttatctatttcccagGTTCGAGGTTCAATTCCACTCCTCTGGGAGCAAATTGTTGATTTGAGCTACAAGCCACGACTTAGAATCATCAATCATGAGCAAACT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttgatgttgtcccatttccagtgcctcacaatcttattcactcccttgttagGTTCGAGGCTCCATTCCACTTCTCTGGGAGCAAATAGTGGATTTAAGCTACAAACCATGTCTCAACATAATTGAACATGAGGAAACG
                         gcctcac  putative branch site (score: 3)
                                  tcttattcactccctt  putative PPT
                                aatcttatt  TA-rich tract