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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag

Basic information

species Oryza sativa
transcript LOC_Os09g25040.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G027563_T02 (Zea mays), 5'ss of exon 4
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgt-attttttttttttggtgaacag-----------------------------------
    ||||||||||| || |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||  | ||   |||    ||| |  ||  |   ||        |   |    ||||  | | || || | ||    | || ||| || |                                      
----ACGGACAAGGCGTCGATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAGCTCCAAgtcaaggcaagcatatgcatggaatgttaaatgccagtgttcgtgttcctggtagcagtggactcga--tccagatgtatgatacgatgttgttgatggagttgctgacatgtaatctgcgcttgccaatccacgcag

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G350165_T01 (Zea mays), 5'ss of exon 5
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagt-attaatctgtttttagt-tcgagatactgacgtgtattttttttttttggtgaacag
    ||||||||||| || ||||||||||||||| ||||||||||||||||||| || ||||||||||||||||||| | |   | || | |   |     |  |  |||   | |  |||  |  |  |  |   ||  ||||                        
----ACGGACAAGGCGTCGATGCTGGACGAGATCGTCGACTACGTCAAGTTCCTTCAGCTCCAAGTCAAGgcaagcatgaaatgttaaatgcagctgttgttgatggagttgctgacatgtaatctgcgtttaccaacccacgtacgcag------------------

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA17G08300.1 (Glycine max), 5'ss of exon 5
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACT---------AAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag
    || |||||||| ||||||||||| ||||||||||| || || ||||||||||| |||||||||||||  | ||    |  |         |||||  |   | |  ||  | | |    ||     | |   |  | | |   ||  |||   |  |  |||  ||     
----ACTGACAAGGCCTCCATGCTGGATGAGATCATCGATTATGTGAAGTTCCTACAGCTCCAAGTCAAGgtgatcattcccctttgtttctacaaatttttttaataaataaaagattgaggataaaaatatgaataaaaagaagtactagtaccataataatttcatg-----

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA15G33020.1 (Glycine max), 5'ss of exon 5
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag-----------------------------------------------------------------------------------------------
    || |||||||| |||||||| || ||||||||||| ||||| |||||||| || |||||||||||||   || | | |      |||||  |  |  ||| |   | ||||| || ||||    |     |    || ||| |    | ||||  | | |                                                                                                 
----ACAGACAAGGCATCCATGCTAGATGAGATCATCGATTACGTGAAGTTCCTGCAGCTCCAAGTCAAGgt--gcgcttcccgcgttttactcttgtac-tagcatt-tcttaatttgattttgtacctcatcagcatcgagtaatagcatattttaattacccaagttgattatttaattagaggctctaagtatgggcttgtgcttattaaattccactgatccctaacctcaattgagtaattaaattgtgttacag

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G14380.1 (Glycine max), 5'ss of exon 5
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtatt--aatctgtttttagttcg----agatactgacgtgtattttttttttttggtgaacag
    || |||||||| |||||||| || ||||||||||| ||||| |||||||| || |||||||||||||   |||       |   |  ||  |||  | | | |  ||||  | | ||||  |  |  |    |  || |  | | | ||  ||      | |||    
----ACAGACAAGGCATCCATGCTAGATGAGATCATCGATTACGTGAAGTTCCTGCAGCTCCAAGTCAAGgtgcgcatcccgcgtttttctcttgtactagcatttctttatttgattttgttcctcatcagcatcaattaatagcatattttaattaccccagttgatt--

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT2G24260.1 (Arabidopsis thaliana), 5'ss of exon 4
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagt-acagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag----
    || |||||||| || ||||| || |||||||| || || ||||||||  ||||||||||||||||||  |   |   | ||   |  |  |||  |  ||| |   | ||| |  |||| |  |||         | | ||| || ||||     ||| |       
----ACAGACAAGGCATCGATGCTCGATGAGATCATAGATTATGTCAAGTTTTTACAACTCCAAGTCAAGgtgaat-ctctccctctctctcatatatttacagttattattttattaagtttgtttttcatacgtacaaggggtaattcttttacagagtgcaatttgtt

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv11s0037g00040.t01 (Vitis vinifera), 5'ss of exon 5
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGTACACTAAATTACTAATACATgtagtacagtattaatctgtttttagttcgagatactgacgtgtattttttttttttggtgaacag
    |||||||||||||| |||||||| |||||||| ||||| ||||| ||||| || |||||||| |||| |  | | |  | |  |||  || ||    ||  | |||    ||  | ||||||||     ||  |  |    |  |  |  |   |       
----ACGGACAAGGCTTCAATGCTGGATGAGATCATTGACTATGTCAAATTCCTGCAGCTCCAAGTGAAGgtattc-cttgtattttatttatagtat---tatcatagttcccat--ggttttagttttt--taggggagacggtggtggtggtgcag-------

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S209_22V6.2 (Physcomitrella patens), 5'ss of exon 4
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAGCACGT--ACACTAAATTACTAA--TACATgtagt-acagtattaatctgtttttagttcga-gatact-gacgtgtattttttttttttggtgaacag
    || || ||||| || |||||||| || ||||||||||| ||||||||||| ||||| ||||| |||| | |   ||    | ||  |    ||  || |||| ||  | |  || |  | ||  || ||  | ||| |  | |   |        | |   |   |   
----ACTGATAAGGCGTCTATGCTGGATGAAATCATCGACTATGTCAAGTTCCTGCAACTTCAAGTGAAGgtatgactgttagtattatctagtcaaaatatatgtggttgctggcttgacattttgctatttaaatgatgcccgtcacatgaggagggtatccagcata---

upper sequence: LOC_Os09g25040.1 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S173_83V6.1 (Physcomitrella patens), 5'ss of exon 4
GCAGACGGACAAGGCTTCCATGCTGGACGAGATCATCGACTACGTCAAGTTCCTACAACTCCAAGTCAAGGCAAG-----CACGTACACTAAATTACTAATAC-ATgtagtacagtattaatctgtttttagttcg-------agatactgacg--tgtattttttttttttggtgaacag-------------------------------------------------------
    ||||| ||||| || |||||||| || |||||||| |||||||||||||| ||||||||||| ||||  ||     ||   | |     | |  | | |  ||   | | |  || |  ||||  |  |||        || | || ||      |   |  ||   || | ||                                                          
----ACGGATAAGGCGTCGATGCTGGATGAAATCATCGATTACGTCAAGTTCCTGCAACTCCAAGTAAAGgtgagagttacaaacatatccggtcaagacttccgtggtttgccggtttgacatgttgctgcttcacacgataagtttctcacaatcacaccatgcttaagtgttaaatttcttatctgtttgtctaaaactggaattcaattttgttggatggtgggcttggcag