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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaattcaattgatagtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag

Basic information

species Oryza sativa
transcript LOC_Os09g32260.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G008374_T01 (Zea mays), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaaca-attcaattgatagt--attttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgttt--ttgtgatgc--atcattttgtttatactcattatatgacag-----------------------------------
||| ||||||||||||||||| |||||  | |||||||| || || ||||||||||||||||| || || |||||||||||| |||||||||| ||||||||| ||  |  ||  || |     |  ||      ||    || | ||||  ||||| |||||   |  | || ||        ||  |  || | |     |   ||  || ||  |||  ||||                                      
CCTGGTGTTCTACAAAGGAAGAGCTCCTCGGGGTGAGAAGACGAACTGGGTCATGCATGAGTATCGCCTGCACTCCAAATCACTCCCCAAATCTAACAAGgtacacgcacgcacgtgcttacggaccttacggtacatatatacatacatatttcacgaaattgcttaatgttgatcagcggaattaatcatggtcctagctagaatggatagacaaatt-catgaagatgttttttggttatctgtatggcactggcgcgcag

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G386163_T02 (Zea mays), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCA------CTCCAAATCAATCCCCAAATCAAACAAGgtaaaca-attcaattgatagtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgttta-tactcattatatgacag
      ||||||||||||||| |||||  | || ||||| || || ||||||||||||||||| || || ||      ||| | |||| |||||||||| || |||||| | | |   | || |   |||| |  || |     |   |   |    | |    |  ||     |||| |  | |||||||||     | | | ||||| |   || ||           
------GTTCTACAAAGGAAGAGCTCCTCGGGGCGAGAAGACAAACTGGGTCATGCATGAGTATCGTCTGCATCACTCCTCTAGATCAGTCCCCAAATCTAATAAGgtatatatacatatttcacgatattatttaattttgggcggaatttaattatgatcctagatagacaaattattgaagatgtttttgg---tcgttaatttgtatggcacgcag----------

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G008374_T02 (Zea mays), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaaca-attcaattgatagt--attttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag
||| ||||||||||||||||| |||||  | |||||||| || || ||||||||||||||||| || || |||||||||||| |||||||||| ||||||||| ||  |  ||  || |     |  ||      ||    || | ||||  ||||| |||||   |  | || ||        ||     |  |||  |  |                      
CCTGGTGTTCTACAAAGGAAGAGCTCCTCGGGGTGAGAAGACGAACTGGGTCATGCATGAGTATCGCCTGCACTCCAAATCACTCCCCAAATCTAACAAGgtacacgcacgcacgtgcttacggaccttacggtacatatatacatacatatttcacgaaattgcttaatgttgatcagcggaatt-----aatcatggtcctag--------------------

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA04G08320.1 (Glycine max), 5'ss of exon 1
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaattcaattgatagtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag
  |||| ||||||||||| || ||||| ||||| || |||| ||| |||||||||||||| |||||  | ||||| ||||| | |   | | | |||| |||| | | ||   ||        || |  ||| ||    ||    |   |  | | || ||||||            || |||||    | | || | ||  | |   | |  | || |   
TTTAGTTTTCTACAAAGGCAGAGCTCCCAGAGGAGAAAAAAGCAACTGGGTCATGCATGAATACCGCATTCACTCAAAATCCAGCTATAGAACTAACAGGgtacatattttgctt-------cttcc--actaaccttaatttggacaatggattcaaattacttc-----------attttttttctctccttcctattcctcaagttgaaaaaataat--

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA14G20340.1 (Glycine max), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATC---CCCAAATCAAACAAGgtaaacaattcaattgata-gtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag
    || ||||||||||| |||||||| ||||| ||||||| ||| |||||||||||||| |||||  | || || ||||| | |     || | | ||||||||  | || | ||| || | | |     | | | | ||   | ||  |   |    |   | | || | | | |    |   |||| |  | |||| || |  ||                  
---GGTTTTCTACAAAGGCAGGGCTCCCAGAGGAGAGAAAAGCAACTGGGTCATGCATGAATACCGCATTCATTCAAAATCCAGCAGCTTCAGAACCAACAAGgt--ataaattaatagacaagcaagcatagaataa-tatcctccaattatgtagggatgatgatttttttcactc---actattttatatttcatccttctcattt-----------------

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA06G08440.1 (Glycine max), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaattcaattgatagtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag
  |||| ||||||||||| || ||||| ||||| || |||| ||| |||||||||||||| || ||  | ||||| ||||| | |   | | | |||| |||| |   ||   ||  |    |   |  | | |  || ||         |||||  ||||  || | |    |  | ||||  |   ||| |  | ||                       
TTTAGTTTTCTACAAAGGCAGAGCTCCCAGAGGAGAAAAAAGCAACTGGGTCATGCATGAATATCGCATTCACTCAAAATCCAGCTATAGAACTAACAGGgtacatgttttgcttcttccactaaccttaattaggacaatggtttcaaatcacttcatttttttctctctccttca-tgttcctcaaatgaaaaaattaa---------------------

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT2G24430.1 (Arabidopsis thaliana), 5'ss of exon 3
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaatt--caattgatagtatttt--caaactcactactata-cacatgcttcactaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatg-acag------------------------------------------------
  | || || |||| |||| | |||||  | || ||||| ||   |||||||||||||||||| ||||| |||||||| ||       | | |   ||||||| || |||  |  ||| || | || |  ||||   || | |||  ||    | | | | || | ||  || || | ||   | ||||| |  ||       |  || | |   |  ||||  | |                                                 
TTTGGTCTTTTACAGAGGACGAGCTCCTCGTGGGGAGAAGACTTGTTGGGTCATGCATGAGTATCGACTTCACTCCAAGTCCTCATATAGAACCTCCAAGgtacactattttcctttgttattcttctaccaaatatac-attatgtcatggtcatgatttaaat-acgagtcttgaatgtttttttttttttgtgggattagtgtttcacaagaagaatatacataaactcaacaattctcatttcatttttcatgatgtaacatgtaaatgcag

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0008g02710.t01 (Vitis vinifera), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaattcaattgatagtattttcaaactcactactatacacatgcttca-ctaaatttacttgtattaattgaaatgtttttgtgatgcatcattttgtttatactcattatatgacag
| | |||||||||| |||||| ||||| ||||| || |||||||||||||||||||| || || ||  |||| || |||||   |  || | | | ||||||||   |||    | ||  || || ||  |        | |   |   |     ||  |  | ||  | | ||  |  ||   |||  |   || | | ||                     
CTTGGTGTTCTACAGAGGAAGAGCTCCTAGAGGCGAAAAAACCAATTGGGTCATGCACGAATATCGCATCCATTCAAAATCCGCCTTCAGAACTAGCAAGgtaag--attatccttatcatacttacatgcatgtcttcaaaagaaaattagggttaggtaaagttcaactcatctaggtg---ttgaaaaatataaatatgaag------------------

upper sequence: LOC_Os09g32260.2 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ11746 (Selaginella moellendorffii), 5'ss of exon 2
CCTAGTGTTCTACAAAGGAAGGGCTCCAAGAGGTGAGAAAACCAATTGGGTCATGCATGAGTACCGACTCCACTCCAAATCAATCCCCAAATCAAACAAGgtaaacaattcaattgatagtattttcaaactcactactatacacatgcttcactaaatttacttgtattaattgaaatgtttttgtg-atgcatcattttgtttatactcattatatgacag
            |   ||  | |||||  | || ||||||||||||||||||||||| ||||| ||  |  |   |||    | | || | |   |       |      | |  |  |||| ||||   | | | | ||   | |||||    |   ||||   || ||  | |     | || |||  | | || | |  | |    || |  | |     
------------CCGGGGCCGCGCTCCCCGGGGCGAGAAAACCAATTGGGTCATGCACGAGTATCGGTTGGAAGGCAAG---ACCGCCTACTTGTATGGATCCAGAGCCGCCAAGgtgagtaatttc--tcgcgccaataccta-atgctctgtttt-tttaagcgtgttcttcgtgtgttcttcgtgtgttcttcgtgtgttcttcgttcgtgttctt----