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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG

Basic information

species Oryza sativa
transcript LOC_Os07g23990.2
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 20
---agtacaggttt-cactgttgactacttcacttaatgc--tttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
   | ||      |      |||| |  |    ||||||    |||     ||  | |||   ||| |  |  ||  ||  ||   ||  |  ||||       |||| ||||| || || ||||| ||||| || || ||||||||||||||||| ||| | |||||||| ||||||||||||||||| ||||||||||| || |
aataataggaacctatgggattgatttatatgtttaatgaaacttctcatctttgttataacacttaaacacttgcatcttcttggatcatcctctgc------agACAGCTGCAAGTTATCATGCAATAGCAATAGCACTCTCATTGATGGAAGCATATCCATTGAGTGTCCAGCATGAGCAAACAACTTTGCAAATTCTGCGGG

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 20
agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacata--cttgtctgttatttt-----agACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
         |  | |  |    || | |   | ||  ||  |  |||||||| | | ||    | | |  |   ||| ||||   ||||  |||| ||       |||| ||||| || || ||||| ||||| || || || |||||||||||||| ||| | |||||||| ||||||||||||||||| ||||||||||| || |
-------actaaaataataggaacctaagggattgtattgtttgtttaatgaaacttctcatctgtgttataacacttacatcttcttggatgtttttcctctgcagACAGCTGCAAGTTATCATGCAATAGCAATAGCACTTTCATTGATGGAAGCATATCCATTGAGTGTCCAGCATGAGCAAACAACTTTGCAAATTCTGCGGG

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 20
agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
       |||    |   ||     ||  ||  || |||    |  |||  || |         |  || ||  | |    || || | |   |||| |||||||||| ||||||||||||||||| ||||| ||||| |||||||| || ||    || ||||||||||||||||||||||||||   ||| ||||| |
-------gttcttttcccgat--gctcgttttttgttttgggaacataaatatgtaa----gaaacttgatttgattttgctaattatgtcaaatttcagACTGCTGCAAGCTACCATGCCATAGCAATTGCGCTCTCCTTGATGGAGGCATACCATTTAAGTGTTCAGCATGAGCAAACAACCTTAAGAATCCTTCGAG

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgtta-----ttttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
      | |||||    ||| |     |   ||   ||   |      |   |  ||  |     ||  ||  | ||||  | | | ||| |||      |  |||| || || || |||||||| ||||| |||||||| |||||||||||||| ||  | ||||| |||||||||||||||||||||||||||||||| || |
---gaggatttcatc--tgaatttagaagggaaaaattattttgggccacacttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: PP1S73_28V6.1 (Physcomitrella patens), 3'ss of exon 14
----agtacaggtttcactgttgactacttcac-----ttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
      |  |    |   |||||| |  ||  |       | |  ||||||| || |    ||     | | |     |||  |||||   | |   ||  | ||  |||||||||| || ||||| || || || ||||| || ||| | ||||| ||||| ||| | |||||||||||||||||||| ||||| || ||| | |   
gttcgttgtaacactagttgttgaatttttttcgagtacaagtcgtttcatctttaacacttaccctatcactgcaaattt--actaattgagt--acttctgttgcagACTGCTGCAAGTTACCACGCAATTGCAATTGCGCTTTCACTTATGGAGGCTTACTCCCTCAGTGTTCAGCATGAGCAAACTACCTTACAGATTTTGCAAA

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: EFJ26734 (Selaginella moellendorffii), 3'ss of exon 19
agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgtt--attttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
                                                   | ||||    | | |     |   || |  | || || | ||  ||||||||| || || ||||||||||||||||| || || || ||  | |||||||| || ||| | ||||| ||||| |||||||||||  | |||||  | |  |
-----------------------------------------------gtaaagattggggaacttttaaactgttctga-gttctagttttttggattttagACGGCCGCTAGCTACCATGCCATAGCTATCGCCCTTTCGCTAATGGAAGCGTACTCCCTCAGTGTACAGCACGAGCAAACAACGCTTCAAATCTTGCAAG

upper sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
lower sequence: EFJ26424 (Selaginella moellendorffii), 3'ss of exon 19
agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
                                      | |  |||     |  ||      | | |||||   | |    || || | ||  ||||||||| || || ||||||||||||||||| || || || ||  | |||||||| || ||| | ||||| ||||| |||||||||||  | |||||  | |  |
-------------------------------------gtaaagattggggaacgtt------taaactgttctgagt--tctaattttttgg-attttagACGGCCGCTAGCTACCATGCCATAGCTATCGCCCTTTCGCTAATGGAAGCGTACTCCCTCAGTGTACAGCACGAGCAAACAACGCTTCAAATCTTGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatgatattgcttgattatctgtttcaactaacatacttgtctgttattttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
                            aactaac  putative branch site (score: 1)
                                              ttatttt  putative PPT
                                            tgttatttta  TA-rich tract