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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaagtggctcatgattataattattctttgttgtcttttttcacttgcgcttcctagcaacaatttgtctctctaatttcggcagGAGAAAGGGAAGCTCAACAAATGGCATCAATGAACAGCTCTTGCCAAGTTTTCTTGACTTGGTAATATGGGGCCATGAGCATGAATGCCTAATTGATCAC

Basic information

species Oryza sativa
transcript LOC_Os08g08030.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g08030.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G309109_T01 (Zea mays), 3'ss of exon 7
-----------gtatgcaaagtggctcatga-----ttataattattctttg---ttgtcttttttcacttgcgcttcctagcaacaatttgt-ctctctaatttcg-gcagGAGAAAGGGAAGCTCAACAAATGGCATCAATGAACAGCTCTTGCCAAGTTTTCTTGACTTGGTAATATGGGGCCATGAGCATGAATGCCTAATTGATCAC
                  |  |     ||||     |||| |  | | | |    ||   ||||| || ||  |||||||    | |  |  | |||| || ||  | | |||| |  ||||||  |   | | |  |||| ||| |  ||  ||||| ||||| | ||| ||||||| |||||||||||||||||||| || |||||||  
gtgcacaatctccgactgagatcatctatgaagattttatgaccactttgtaattttaattttttgcagttttgcttcctgatcagatgtcattctctgtacttctgtgtagGACACGGGGAAGTCCTGGAGACGCTATCAGTGAGCTCCTTCTGCCACGTTTTGTGGACATGGTAATTTGGGGCCATGAGCATGAATGTCTGATTGATCCA

upper sequence: LOC_Os08g08030.1 (Oryza sativa), 3'ss of exon 7
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgcaaagtggctc-atgattataattattctttgttgtcttttttcacttgcgcttcctagcaacaatt-----tgtctctctaatttcggcagGAGAAAGGGAAGCTCAACAAATGGCATCAATGAACAGCTCTTGCCAAGTTTTCTTGACTTGGTAATATGGGGCCATGAGCATGAATGCCTAATTGATCAC
          ||  || ||   |||||  ||  |||      |||| | |||    ||   |   || | ||     ||| |   ||      |||||   ||   || | | | |||||  || | ||| ||  |  | ||| |||| || |||||  |  | |||||||||||||||||||||||||| || | |
--------gttgattccattgctataac-atcttttagatcgttttcttactcattctgtatcagaaaatttgatactgtattcatatgacttgcagGGTGAAATCAAACCCCAAAAATGCAATAAGTGAGCACTTTCTTCCACGTTTCCTCGACTTCATTGTGTGGGGCCATGAGCATGAATGCCTAATCGACCCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcttttttcacttgcgcttcctagcaacaatttgtctctctaatttcggcagGAGAAAGGGAAGCTCAACAAATGGCATCAATGAACAGCTCTTGCCAAGTTTTCTTGACTTGGTAATATGGGGCCATGAGCATGAATGCCTAATTGATCAC
                                        ctctaat  putative branch site (score: 3)
     ttttttca  TA-rich tract