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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgcgcatgcctttagctcctgaaagtcacattatgcctgaaattcttgtttgatttcgatttgtgacatacataggatataacatttcaatgcttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG

Basic information

species Oryza sativa
transcript LOC_Os07g47290.3
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G427620_T01 (Zea mays), 3'ss of exon 8
------------------------------------gtatgtgcgcatgcctttagctcctgaaagtcacatta------tgcctgaaattcttgtttgatttcgatttgtgacat----acataggatataacatttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                                      ||  ||| ||| |   |  |  |    || ||| ||      | | || | |||||  ||  |||| |      | ||    | ||  |  ||  |||   ||     ||||    ||||| ||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| |||||||||                             
gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaattaaaaaatgaggcatg-catagtaacttaccttaccgttatggtcagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAAT-----------------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G080345_T01 (Zea mays), 3'ss of exon 1
------------------------------------gtatgtgcgcatgcctttagctcctgaaagtcacatta------tgcctgaaattcttgtttgattt-cgatttgtgacatacataggatataa---------catttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                                      ||  | | ||| |   |  |  |    || ||| ||      | | || | |||||  ||  |||         || | | |||  | | ||         |||   ||     ||||    |||||| ||||||||||||  |||||||| | | ||| ||| |||||||||||||||||||||||||||| |||||||||                             
gtatgtgtcactgttgtatataactcctttgctttttaataagtgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttatagagaaagaaaaaaataaaaaaaaatgaggcatgcatagtaacttaccttaccgttatggaaagGTTGGGACACAAATCAGTTCATGATAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAAT-----------------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G081682_T01 (Zea mays), 3'ss of exon 15
--------------------------------------------gtatgtgcgcatgcctttag-----ctcctgaaagtcacat-tatgcctgaaattcttgtttgatttcgatttgtgacatacataggatataacatttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                                            |||||  |  ||    || |     | |  ||||   ||||  ||  ||  | |  ||  | ||     |    | | | | ||  |  ||  |||   ||     ||||    ||||||||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| |||||||||                             
gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatg-catagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAAT-----------------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G005493_T01 (Zea mays), 3'ss of exon 15
----------gtatgtgcgcatgcctttagctcctgaaagtcacat-tatgcctgaaattcttgtttgatttcgatttgtgac---atacataggatataacattt-caatg-cttatata-----tatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
           | | | |  |   | ||   |  |    |   |||  |||| |    ||||| | |  ||       |  |    ||| | || ||    |||    | |  ||||| |      ||||  |||| |||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||| |||||||||||||                             
gtaagtgtcactgtttacataactcattgtgttatactggaagcatacatgcatctctttcttctctttttagagaaagaaaagtaataaaaagaatgaggcatgcatagtaacttatcttccccttatgagcagGCTGGGACACGGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAACTGTGGTTAAGAAT-----------------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G313536_T01 (Zea mays), 3'ss of exon 12
------------------------------------gtatgtgcgcatgcctttagctcctgaaagtcacatta------tgcctgaaattcttgtttgatttcgattt-gtgacatacataggatataacattt-caatg------cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                                      ||  ||| ||| |   |  |  |    || ||| ||      | | || | |||||  ||  |||| |    | || |   | |  ||    |||    | |       ||||    ||||||||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| |||||||||                             
gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagagaaaattaaaaaatgaggcatgcatagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAAT-----------------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G081682_T02 (Zea mays), 3'ss of exon 15
--------------------------------------------gtatgtgcgcatgcctttag-----ctcctgaaagtcacat-tatgcctgaaattcttgtttgatttcgatttgtgacatacataggatataacatttcaatg---cttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                                            |||||  |  ||    || |     | |  ||||   ||||  ||  ||  | |  ||  | ||     |    | | | | ||  |  ||  |||   ||     ||||    ||||||||||||||||||| ||||||||| | ||||| ||| |||||||||||||||||||||||||||| ||||||||||||||| | || ||  |  | |  || | 
gtatgtgtcactgttgtatataactcctttgttttttaataagcgtatgacccgatattatttgtgttacactagaaacatacatgcatttctttattcttttctagagagaaaaaaataaaaaaaatgaggcatg-catagtaacttaccttaccgttatggacagGTTGGGACACAGATCAGTTCATGACAGACATTGCAGAGGCTACTTTGGTTATGTCAAGTGTAGTTAAGAATGTGAGTGGCATGAACTAGCTCTCTCCCTT

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 15
lower sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 16
---gta-tgtgcgcatgcctttagctcctgaaagtcacattatgcct--gaaattctt---gtttgatttcgatttgtgacatac-----ataggat-ataacatttcaatgcttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
    || |||   |||    |    | ||  || |   | | | | |  |  ||| |    | ||||  |  ||| || | || |     ||  |||  |||| | |   || |  |  ||     ||||||||||||| ||||||||||||||||||||  | ||||| ||  ||||||||   ||||||||    |||                             
gtattactgtctacataaactgcttttctagaatttttacttttcttttgccattttacaggcttgacataaattagt-atattctgattatgagattgtaacctatagctgttgtttcatgaatgcagGTTGGGACACAGATCAGTTCCTTACAGATATAGCTGAGGCAACCATGGTTATGCTCAGTGTGGTCCGAAAT-----------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgatttgtgacatacataggatataacatttcaatgcttatatatatggacagGTTGGGACACCGATCAGTTCCTTACAGATATTTCAGAGGCTACTTTGGTTATGTCAAGTGTGGTTAAGAATGTGAGTTGAATTAATAATATGTTGCCTTG
                      atataac  putative branch site (score: 3)
                      atataacatttcaatg  TA-rich tract