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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccagcaagttgcaacctcactttacttccactacttttccttctaggaagctaacaatgtccatttttttctcctcaactacagCTTCTTCGCTTCCCTGGAGTTCCTTCATCCTCTATCGGATTCTCCCCAGAAATGATGCATCCTCAACTACAATTGTCACAACCAGGACTGATTCATGGTG

Basic information

species Oryza sativa
transcript LOC_Os09g29830.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g29830.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G137541_T01 (Zea mays), 3'ss of exon 5
gtatgccagcaagttgcaacctcactttacttccactacttttccttctaggaagctaacaatgtccatttttttctcctcaactac-agCTTCTTCGCTTCCCTGGAGTTCCTTCATCCTCTATCGGATTCTCCCCAGAAATGATGCATCCTCA---ACTACAATTGTCACAACCAGGACTGATTCATGGTG
||| |   ||     || | |||      | ||||    |   |  ||||  ||  |||    || | |    |  |     ||||| ||||||| ||||||||||| | |||||| |||||  |||| ||  |||||||||||||||| || ||   ||||||  |||| || ||||| | |  |  |    
gtacgtacgc-----gcgatctcgt----cctccatcg-tccccaatctaacaaa-taaaggcgttcttacaatcttatcttactaccagCTTCTCCGCTTCCCTGGTGCTCCTTCGTCCTCCCTCGGGTTTCCCCCAGAAATGATGCACCCGCAGCTACTACAGCTGTCGCAGCCAGG-CCGCCTGGTCC--

upper sequence: LOC_Os09g29830.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G818643_T02 (Zea mays), 3'ss of exon 4
gtatg------ccagcaagt---tgcaacctcactttacttccactacttttccttctaggaagctaacaatgtccatttttttctcctcaactacagCTTCTTCGCTTCCCTGGAGTTCCTTCATCCTCTATCGGATTCTCCCCAGAAATGATGCATCCTCAACTACAATTGTCACAACCAGGACTGATTCATGGTG
|||||      || ||||     | |   ||| || |   |||| |  || | | | || ||| ||||||| | |||| | ||  |   ||    |||||||| ||||||||||| |||||||| || ||  | ||||||||||| ||||||||||| || || || ||  | || || ||||| ||||| || || |
gtatgatgcttcctgcaatcccattctctctctctctctctccatttgttatacatgtaagaatctaacaaag-ccatatattctttacca---tcagCTTCTCCGCTTCCCTGGCGTTCCTTCGTCTTCCCTTGGATTCTCCCCGGAAATGATGCACCCACAGCTGCAGCTCTCGCAGCCAGGCCTGATCCAGGGCG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacttttccttctaggaagctaacaatgtccatttttttctcctcaactacagCTTCTTCGCTTCCCTGGAGTTCCTTCATCCTCTATCGGATTCTCCCCAGAAATGATGCATCCTCAACTACAATTGTCACAACCAGGACTGATTCATGGTG
                   agctaac  putative branch site (score: 2)
                              tccatttttttctcct  putative PPT
                                 atttttttct  TA-rich tract