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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatagcaactgtaacatgaagatagcagtagtgcttactgttttactactagtatctctctgatagtctgatgttctaatcactttggattggattgctaattatcttttaaagttactgtagctgtagaaacatccttatttaactccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG

Basic information

species Oryza sativa
transcript LOC_Os02g55130.4
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g55130.4 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G879749_T02 (Zea mays), 3'ss of exon 1
gtaaatagcaactgtaacatgaagatagcagtagtgcttactgttttactactagtatctctctgatagtctgatgttctaatcactttggattggattgctaattatcttttaaagttactgtagctgtagaaacatccttatttaactccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG
                                                           ||||| | |  ||   | |     |  | || ||     |||  |||  ||  || |||  |   ||||||  ||   |   ||   |  ||   |        |||  |   |  |||||||||||||||| ||| | ||||||||||| || || ||||| ||||| ||  |||| ||  ||||||||||||| || |  || ||||||||||||||
-----------------------------------------------------------tctct-acatgcttccgcttccgcctatatgcata----tgc--attgcctgctatagtacc---agctgtgtaatagtatgta--cagttctgatggc-----ctggca--ctggcagGTCCTGGATGCTCGTCGGTGGCGTATGGAGCGTCGGAGGAGATCGGCCCGTTCCGGATCAAACCAAACGGGACAGGCCTGTTCCTCAACAAGTACTCATG

upper sequence: LOC_Os02g55130.4 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA08G26930.1 (Glycine max), 3'ss of exon 1
gtaaatagcaactgtaacatgaagatagcagtagtgcttactgttttactactagtatctctctgatagtctgatgttctaatcactttggattggattgctaattatcttttaaagttactgtagctg-tagaaacatccttatttaac-tccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG
                                                                          |  | ||   |||||  |||  |||  || |||||||   | |||        |  |  |    | || ||||| | | || |||| |||  || ||| ||   |||||| ||||| |||||  | || |||||||||||||||||||||||||||||||| || || | ||  |   | || || ||    ||||||| ||||||
-----------------------------------------------------------------------cattacttta--tacttt--attcaatt--tatttatcttactaggttttgacttttaatccattttttctaatttagcgtgcaataatcttttgtggtaaatt---agGTCCAGGATGTTCATCAGTGGCATATGGAGCATCTGAAGAGATTGGCCCATTTAGAATAAACAAAACAGCTTCTGGTCTATACAAAAACAAGTTCTCATG

upper sequence: LOC_Os02g55130.4 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA18G50170.1 (Glycine max), 3'ss of exon 1
gtaaatagcaactgtaacatgaagatagcagtagtgcttactgttttactactagtatctctctgatagtctgatgttctaatcactttggattggattgctaattatcttttaaagttactgtagctgtagaaacatccttatttaactccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG
                                                           |   | ||| |    | ||| |||   |||  ||| || || |  ||  |||||| |   | | |   | ||        ||||  |   | || |||| |||| || ||| ||   |||||| ||||| |||||  | || |||||||||||||||||||||||||||||||| || || | ||  |   | ||||| ||  | |||||||  || ||
-----------------------------------------------------------tactttatacttcattattc-aatttatttatattagaatgtt--ttgacttttagatccatttt---tttaa-------cttaagtg--tgcaataatttttg-tggtaaatt---agGTCCAGGATGTTCATCAGTGGCATATGGAGCATCTGAAGAGATTGGCCCATTTAGAATAAACAAAACAGCTTCTGGGCTATACATTAACAAGTTTTCGTG

upper sequence: LOC_Os02g55130.4 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv14s0068g00260.t01 (Vitis vinifera), 3'ss of exon 1
gtaaatagcaactgtaacatgaagatagcagtagtgcttactgttttactactagtatctctctgatagtctgatgttctaatcactttggattggattgctaattatcttttaaagttactgtagctgtagaaacatccttatttaactccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG
                                                                    |  |  | |   |||||  |||||||    |          | | | | |   | ||  | ||| | | |  |  |   |||       | |||  |  ||| ||   ||||||||| ||||| ||  | |||||||| ||||||||||| || |||||||||||||| || |  |  |   |||| || || || ||||||| ||||||
--------------------------------------------------------------------gctt--tttaaaaatcaagttggattaatatataggacccgtctcataatgtatatatatatagtatc-tgatggtgagact-------tgttttgttgtaacttgtaagGTCCTGGTTGCTCTTCTGTGGCGTATGGGGCATCTGAAGAAATAGGCCCATTTAGGATCAACAAGACTGCTTCAGGCCTGTACCTTAACAAGTTCTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctgtagaaacatccttatttaactccagtaatatttgctgataatttcccagGTCCTGGATGCTCATCGATTGCGTATGGAGCATCTGAAGAGATTGGCCCATTTAGGATTAAGACAAACGGGACAGGGCTCTATCTGAACAAGTACTCATG
                                      tgctgat  putative branch site (score: 3)
                                               tttccc  putative PPT
                 ttatttaact  TA-rich tract