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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatttcattttcagttttgccacatacaatcccattctaaactacatagctttctaaccagcagttttgttttgttttagGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG

Basic information

species Oryza sativa
transcript LOC_Os02g40030.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 5
gtaacatttcattttcagttttgccacatacaatcccattctaaactacatag-ctttctaaccagcagttttgttttgttt--tagGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG
|||| | |   || |   |||| | ||||| |||    ||| |   |||| |  |||||| |  ||  ||| | |||  |    |||||||||||||||| || |||||||| ||||||||||||||||| |
gtaaaagtagtttct---ttttccaacatataatgttcttccacgttacaaaatctttctgattagatgttctttttcttcccatagGAAAATCTAGTGGCCTTAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 5
gtaacatttcattttcagttttgccacatacaatcccattctaaactacatag-ctttctaaccagcagttttgttttgttt-tagGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG
     |   || || |  |||| | ||||| | |    ||  |   |||| |  |||||| | |||  ||| | |||  |   |||||||||||||||| || |||||||| ||||||||||||||||| |
---gtaaagcagttcct-ttttccaacatatagtgttctttcatcgtacaaaatctttctgatcagatgttctttttcttccatagGAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA14G14360.1 (Glycine max), 3'ss of exon 5
---gtaacatttcattttcagttttgccacatacaatcccattctaaactacatag-ctttctaaccagcagttt------------------tgttttgtt-ttagGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG
   |||    |  | ||  ||| |   |||||| | |   ||| || ||   ||   ||| | | || ||| |||                  ||| || || | ||| ||| |||||||||| |||||||| ||||| ||||||||||| |
gttgtattcctatacttctagtctc-tcacataaagtgaaattttataccttattttcttcccagcctgcattttcttatttgtatggtatcatgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG

upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
-----------------gtaacatttcattttcagttttgccacatacaatcccattct---aaactacatagctttctaacca-gcagttttgttttgtttta---gGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG
                  ||   | |||  |  |||        ||||  ||   |  |   |  || ||||  ||  ||   |    || | || |  |||||   || ||| |||||||||| |||||||| ||||| ||||||||||| |
gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatcccattctaaactacatagctttctaaccagcagttttgttttgttttagGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG
                          ttctaac  putative branch site (score: 1)
                                       ttttgttttgtttt  putative PPT
                                       ttttgttttgtttta  TA-rich tract