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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataggacttcaagacagacccgtacctggccacactgctcaactgtatgctctgggacttttacggtctccccatcgtccaccccaacagcatcctcgtcgtcaccatcaacggcattggccttgtcatcgagacctgtctatctcaccatcttcttcctcttctccgacaagAAGAACAAGAAGAAGATGGAAGTGGTGCTAGCGGCGGAGGCTCTCTTCATGGCGGCGGTGGCGCTTGGCGTACTCTTAGGCGTGCACACCCATCAAAGAC

Basic information

species Oryza sativa
transcript LOC_Os09g08030.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g08030.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G157675_T02 (Zea mays), 3'ss of exon 1
gtataggacttcaagacagacccgtacctggccacactgctcaactgtatgctctgggacttttacggtctccccatcgtccaccccaacagcatcctcgtcgtcaccatcaacggcattg-gccttgtcatcgagacctgtctatctcaccatcttcttcctcttctccgacaagAAGAACAAGAAGAAGATGGAAGTGGTGCTAGCGGCGGAGGCTCTCTTCATGGCGGCGGTGGCGCTTGGCGTACTCTTAGGCGTGCACACCCATCAAAGAC
                             |    ||||  || |  |   |  | ||  | | |  |   |     |  |  |       ||  |  |  | ||    ||  | ||    | ||   | |  |   | |||| | |||| |   | | | |    |  |   |  |  || | | |||   | ||| |||| |        |  ||  |  | | ||||| || ||       || | ||||  |   |  |              
-----------------------------gtaggcactcatcgatcg---gtccgggttcatctgggtggtttttttttttgatttggttagggttttgtttgtactgatatatggagaggcgcgccgccgcctgcatctgtgt-tctcgcgtgcctgtgcagGCTGACGTTCTGGCGGATCTACAAGGCCAAGGACGTGGAGGAGTTCAAGCCGGACCCTTACCTGGCGACGCTGCTCAACTGCATGCTCTGGGTGTTCTAT-------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggccttgtcatcgagacctgtctatctcaccatcttcttcctcttctccgacaagAAGAACAAGAAGAAGATGGAAGTGGTGCTAGCGGCGGAGGCTCTCTTCATGGCGGCGGTGGCGCTTGGCGTACTCTTAGGCGTGCACACCCATCAAAGAC
                       atctcac  putative branch site (score: 3)
                cctgtctatctcacca  CT-rich tract