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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttttattaaatgccttgtctcttgaaaaaaaatacttgattgataatttttctttgtattttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG

Basic information

species Oryza sativa
transcript LOC_Os03g17540.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G095868_T03 (Zea mays), 3'ss of exon 6
gtatgcttttattaaatgccttgtctcttgaaaaaaaatacttgattgataatttttctttgtattttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
|||||  ||| ||  ||        |      |||||| | |  || |  |||||||  |        || || ||||||                      ||   | ||||| ||     |||||||||| ||||||| | || ||||| |||||||| ||||||||||| || |||||||| |||||||||||||| |||
gtatgtctttcttgtata-------tggaaggaaaaaagattcaatggccaatttttagtg-------catgactgtatgg--------------------cttctccattttcacttgc--ttttgaattt-cagGGCTTTAGTAGGGGTTATTGATGATTATTTTGATGGATACTACACTGAAGAAATGATTGAATCACAG

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G154883_T01 (Zea mays), 3'ss of exon 6
gtatgcttttattaaatg--ccttgtctcttgaaaaaaaatacttgattgataatttttctttgtattttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
|||||  || || |||||  |||||| | | |||   ||| |  |  |  ||     || |||     | ||||  ||||||    ||| | ||  ||||          | ||| ||              |||||||||  | || ||||| |||||||| ||||||||||| || |||||||| ||||||||||||||||||
gtatgtcttcatgaaatggaccttgtatatggaagggaaaaaaatattcaatggccctttttta---gtgcaaggctgtatggcttctccattttgactt----------gcttttgca-------------tttcagGGCCTTAGTAGGGGTTATTGATGATTATTTTGATGGATACTACACTGAAGAAATGATTGAATCTCAG

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 7
gtatgcttttattaaatgccttgtctcttgaaaaaaaatacttgattgataatttttctttgtatt-ttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
                     ||||| || ||| | |         |||||||   |||||||||| || || |    |  ||   | |   | |  ||||| ||      |   | | |     |||   | |||||||  | |  ||  | |||||||| |||||||  || ||||| |||||||| |||||||||||||| 
-------------------gctgtctatttaaagaca---------tgataata--tctttgtattgtttaacaaaaaacacttggtttgtcttctgtttatattatctaat---gtttaa----ttgggatctcagGGCATTTGCTGGCATTATTGATGAATATTTTGCAGGCTATTATACTGAGGATATGATTGAATCTCAA

upper sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 7
lower sequence: AT2G37290.2 (Arabidopsis thaliana), 3'ss of exon 6
gtatgcttttattaaatgccttgtctcttgaaaaaaaatacttgattgataatttttctttgtattttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
                                         | || ||||||   |  ||| | | |      ||| |  |||||      | || |    |   ||  ||||      | | |   |  | ||||| || |||| ||| | |||||||| ||||||||||| || || ||||| |||||||| |||||||||
----------------------------------------gtagagtgataaagctgttttctctgtct----ttgaaccctaaca-----tgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
                                                ttttc  CT-rich tract
                                     atcattttgaatttt  TA-rich tract