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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctaactcttgggactacttctgttagaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG

Basic information

species Oryza sativa
transcript LOC_Os10g14814.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g14814.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G027115_T02 (Zea mays), 3'ss of exon 8
gtatgttctaactcttgggact------acttctgtt----------agaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG----
|||||||| || ||||| |  |      |||| ||||          |||| ||||   |  | || | ||||||| | || | || |  | |||||||||||| | ||||||||||||||||||||||||||| |||||  ||||||| |||||||| |||||||||||||||||||||||||| |||||||    
gtatgttcaaagtcttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagcttatctgtcgataaatgtgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGATCAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATACCAACAGGTAT

upper sequence: LOC_Os10g14814.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G027115_T01 (Zea mays), 3'ss of exon 8
gtatgttctaactcttgggact------acttctgtt----------agaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG
|||||||| || ||||| |  |      |||| ||||          |||| ||||   |  | || | ||||||| | || | || |  | |||||||||||| | ||||||||||||||||||||||||||| |||||  ||||||| |||||||| |||||||||||||||||||||||||| |||||||
gtatgttcaaagtcttgagcttctctatacttttgttcattgagaagagaacattatgtgggttttaagcttatctgtcgataaatgtgctgtgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGATCAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATACCAACAG

upper sequence: LOC_Os10g14814.1 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
-------------------------gtatgttctaactcttgggactacttctgttagaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG
                          |||  || |||  ||   | ||    | |      |||||    || || |||| | |||||||    || ||  ||||||| | || |||||||||||| |||| || |||| |||||||||  |||| ||||| ||||| || ||||| || || ||||| ||| | |||||||
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattact--tattttcatctgaactattgat---ttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttagaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG
                                 tattgac  putative branch site (score: 2)
                      tttatcttatctattg  TA-rich tract