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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatgaccgctgttgcctgaaaaattataaatttctctgtgatcttcatcgtgtttgccgtgcaagtacccatagtctaactcataattaccatgtttgctagTGCTACCTCTGTTGGAGCGATCTCTTACATGGATATTGAAGGGTTTAGATACAAAAGGGATGTTCTCTTCTGTTATGACCTTAAACTTCCTCCAGATTTT

Basic information

species Oryza sativa
transcript LOC_Os09g15340.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g15340.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G031461_T01 (Zea mays), 3'ss of exon 6
--gtaatatgaccgctgttgcctgaaaaattataaatttctct-gtgatcttcatcgtgtttgccgtgcaagtacccatagtctaactcataattaccatgtt-tgctagTGCTACCTCTGTTGGAGCGATCTCTTACATGGATATTGAAGGGTTTAGATACAAAAGGGATGTTCTCTTCTGTTATGACCTTAAACTTCCTCCAGATTTT
    |||   |   || || |||  || ||| |       |||  |||| ||  |  ||||     |   |||    |  || ||||  ||| ||| |||    |  ||||||||| |||||||||||| | ||||| |||||||||||||| ||||||||||||||||||||||||||||| ||||||||  |||||||| | ||||||
gtacaattcaaaaccttttccctagaacattcttctcaattcttatgattttt-ttttgttacgtttctgagtg--aaatgtgtaacaaatatttatcataacatattagTGCTACTTCTGTTGGAGCGGTTTCTTATATGGATATTGAAGGCTTTAGATACAAAAGGGATGTTCTCTTCTGCTATGACCTCCAACTTCCTGCTGATTTT

upper sequence: LOC_Os09g15340.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA18G08420.1 (Glycine max), 3'ss of exon 6
gtaatatgaccgctgttgcctgaaaaattataaatttctctgtgatcttcatcgtgtttgccgtgcaagtacccata---gtctaactca--taattaccatgtttgctagTGCTACCTCTGTTGGAGCGATCTCTTACATGGATATTGAAGGGTTTAGATACAAAAGGGATGTTCTCTTCTGTTATGACCTTAAACTTCCTCCAGATTTT
  ||   || | || || ||     ||  ||||       ||| |   |  || | | ||  || |   |  |  |    |||||| ||   | |||      ||  | || || |   | ||||| ||  | || |||| ||| ||||| || | ||||||||| || |||||||| ||||||||||| || ||||||||   |||||| 
--aactagatcactctttcc-----aaccataagccaaaatgtcaaaat--tcatatatgtagtactcttttctttttctgtctaattctgttgattgatgctttcac-aGCGCCATACCGGTTGGTGCTGTTTCATACAAGGACATTGATGGATATAGATACAAGAGAGATGTTCTGTTCTGTTATGATCTAAAACTTCCAAAAGATTT-


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtgtttgccgtgcaagtacccatagtctaactcataattaccatgtttgctagTGCTACCTCTGTTGGAGCGATCTCTTACATGGATATTGAAGGGTTTAGATACAAAAGGGATGTTCTCTTCTGTTATGACCTTAAACTTCCTCCAGATTTT
                          gtctaac  putative branch site (score: 2)
                                 tcataatta  TA-rich tract