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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgttgattttgaatcatggcagagcacttagcttcaatatttggtacagagaaagataaggtcaactgcccattttacttcaagattggggcttgccgtcatggggatcggtgctcttgtcttcataacagGCCCACCATATCACCAACTGTTGTGTTTGCGAACATGTATCAGCGCCCTGATATGATCACGCCCGGGGTTGATGCTCAAGGCCAGCCGATAGATCCCCGC

Basic information

species Oryza sativa
transcript LOC_Os01g47750.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT1G27650.1 (Arabidopsis thaliana), 3'ss of exon 1
gttcgttgatt-ttgaatcatggcagagcacttagcttcaatatttggtacagagaaagataaggtcaactgcccattttacttcaagattggggcttgccgtcatggggatcggtgctcttgtcttcataacagGCCCACCATATCACCAACTGTTGTGTTTGCGAACATGTATCAGCGCCCTGATATGATCACGCCCGGGGTTGATGCTCAAGGCCAGCCGATAGATCCCCGC
 || |||  || ||||    |   | | |    |   ||  | ||   |  |     | ||   |  || |    || ||  |  | || ||    ||       |  || | |    |||      |||  | ||  ||        | | || | ||  |    || |      || |   ||   |    ||   |  | |||  |||    | |                 
-ttagtttcttgttgatgtttttgatatctaccaatctc--ttttcaatttatgtctatatgttgctaaat----atcttgttcaatgactga--tttcttaaactcagGGTGGAAATTCT----GCCATGGC-GGAGCATTTGGCTTCAATCTTTGGTACTGAGAAAGACAG---AGTGAATTGCCCTTTCTAC-TTCAAGATTGGCGCTTGCCGTC-----------------

upper sequence: LOC_Os01g47750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT5G42820.1 (Arabidopsis thaliana), 3'ss of exon 1
-gttcgttgattttgaatcatggcag-agcacttagcttcaatatttggtacagagaaagataaggtcaactgcccattttacttcaagattggggcttgccgtcatggggat--cggtgctcttgtcttcataacagGCCCACCATATCACCAACTGTTGTGTTTGCGAACATGTATCAGCGCCCTGATATGATCACGCCCGGGGTTGATGCTCAAGGCCAGCCGATAGATCCCCGC
   ||  ||||| |||||| |    | ||   || | || |  || |    |  ||||  | ||  |    ||   | || | ||  |  || |    ||      || | ||  | | ||  ||  |||||        |     ||     ||   | | ||    |||    | ||  ||   |  | | |    |   || | |  |  ||| ||  | |              
tcgtctctgattctgaatcgttcttgtagtgatttgatttatcatataa-gcgtagaagaacaattt---gtgtttagttgaatttgatttttgt-tatgtttagGTGAGAATGGCAGAGCATTTAGCTTCA------ATCTTTGGTACTGAAAAGGATAGAGT----GAAT---TGTC--CGTTTTACTTTAA----GATTGGTGCTTGTCGTCACGGTGACC--------------

upper sequence: LOC_Os01g47750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT1G27650.2 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------gttc---gttgattttgaatcatggcagagcacttagcttcaatatttggtacagagaaagataaggtcaactgcccattttacttcaagattggggcttgccgtcatggggatcggtgctcttgtcttcataacagGCCCACCATATCACCAACTGTTGTGTTTGCGAACATGTATCAGCGCCCTGATATGATCACGCCCGGGGTTGATGCTCAAGGCCAGCCGATAGATCCCCGC
                                     ||   || ||  ||    |||||| ||||| || |||||||| |||||||| |||||||| |  || || ||||| || |||||||||||||| |||||||||||||| || ||||||||  ||||||| ||| | || ||||| || |||||  |  |  ||                                                                        
ttgctaaatatcttgttcaatgactgatttcttaaactcagggtggaaattctgccatggcggagcatttggcttcaatctttggtactgagaaagacagAGTGAATTGCCCTTTCTACTTCAAGATTGGCGCTTGCCGTCATGGTGACCGGTGCTCGCGTCTTCACAACCGTCCTACCATCTCCCCAACACTCCTTCTT------------------------------------------------------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcaagattggggcttgccgtcatggggatcggtgctcttgtcttcataacagGCCCACCATATCACCAACTGTTGTGTTTGCGAACATGTATCAGCGCCCTGATATGATCACGCCCGGGGTTGATGCTCAAGGCCAGCCGATAGATCCCCGC
                                     ctcttgtcttc  CT-rich tract
                                             ttcataa  TA-rich tract