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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgctgtacataacacctatctgtgtgcagttctgctcttgtttttgaagtaactatacatttataaacatgctatttactcaagtaataacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGGTACAAGACATTATGACTA

Basic information

species Oryza sativa
transcript LOC_Os08g42420.5
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42420.5 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
-gtgctgtacataac---acctatctgtgtgcagttctgctcttgtttttgaagtaactatacatttataaacatgctatttactcaagtaataacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGGTACAAGACATTATGACTA
   | | ||||  |    |  ||    | |||    |||| |   |||| | |||     | |   | |    |   | |  | | ||  ||| || |  | |||| || |||||||| ||||||||||||||||||||||||||||||| |||||||||||  ||||||||| | || ||||||                   
aaagatttacaggatctgatttacacatctgcg--cctgcccac-ttttgggagttgtattccgagtctctgtacaat-tgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG-------------------

upper sequence: LOC_Os08g42420.5 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ28764 (Selaginella moellendorffii), 3'ss of exon 2
gtgctgtacataacacctatctgtgtgcagttctgctcttgtttttgaagtaactatacatttataaacatgcta-tttactcaagtaat--aacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGGTACAAGACATTATGACTA
                                             | ||||   ||| | ||   |    | ||| ||| ||||||   |  |       ||||| |||||||| || || ||||| ||  | ||||| ||| |||||||||||||||||||||| |||||  |||| ||||||                   
--------------------------------------------gtaaagtgtttattcgttg--aggtgtcctagttttctcaagggctctattggttgtagGTGGTGAGCAATCCAGAAAAGACCCCTGTACATACATTCATCTGCAGCTATGACTTGACAGATATGCCACCAGGAACCAAG-------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagtaactatacatttataaacatgctatttactcaagtaataacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGGTACAAGACATTATGACTA
                                        taataac  putative branch site (score: 1)
     taactatacatttata  TA-rich tract