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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccatagattggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaatgctctgcccttggcagcaaaaaaatggtttctg...

Basic information

species Oryza sativa
transcript LOC_Os06g49130.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA07G00230.1 (Glycine max), 5'ss of exon 11
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaag-accatagatt-ggcatctatg---------------ttgt-tatccttgttaatagtgtggctgcatttgtggggtaatgctctgcccttggcagcaaaaaaatggtttctg---
| ||||| |||||||| |||||  | || || |||||||| ||||| |||||||||||||| |||||||| || ||||| || ||||| || ||| | |||| ||    |||| ||  | || ||                 |||| |||   | ||  | ||        ||| |     |    ||||  | |  |||      ||   |||||||   
GCTATATCTGGGCTTGTCCTCCATTAAAGGGGGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACCCCAAAATCCGATAAGCTACGTGAATGgtgagcgtaatagcttcagtatatacaaaatgagaaaaaaacttgtctatttattttccttgtacaatgtgattaggtttattcatctctaacttcagcatttgtcaacatgtttctgcag

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA08G24290.1 (Glycine max), 5'ss of exon 13
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagacca-tagatt-ggcatctat-------------gttgt-tatccttgttaatagtgtggctgcatttgtggggtaatgctctgcccttggcagcaaaaaaatggtttctg---
| ||||| ||||| || |||||  | || || |||||||| ||||| |||||||||||||| |||||||| |||||||| || ||||| || ||| | |||| || | | ||| ||  | ||  |              ||||| |||   | ||  | ||     ||   ||  |   |    ||||  | |  |||     |||   ||||||    
GCTATATCTGGGCCTGTCCTCCATTAAAGGGAGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACACCAAAATCCGATAAGCTACGTGAATGgtgagcctaatagcttcagtatagacaaaatgaaaaaaagttgtctatttattttccttgtacaa-tgtgattaggttatttatctctaacttcagcatttgtaaacatgtttcttcag

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA15G00250.1 (Glycine max), 5'ss of exon 11
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccatagatt--ggcatctatgttgttatccttgttaatagtgtggctgcatt-tgtggg-gtaatgctc----tgccc-ttggcagcaaaaaaatggtttctg---------------
| || |||||||| || |||||  | || ||||||||||| ||||| ||||| ||||| || |||||||| || ||||| |||||||| ||  |  | |||||||   | |   |   | ||  |  |  | |        | | |  |   ||  ||   ||     |||||||    | | | ||   | | | |   || ||  ||               
GCTACATATGGGCATGTCCTCCATTAAAGGGTGAAGATTATATTTTATATTGTCATCCGGAAATTCAGAAAACTCCAAAATCTGATAAGCTTAGGGAATGgtaagtttaaaagcttcaggataaacataatgagaaagtgaagttgcctaattgttttacatgtacaaaatgctcaaggtactcatttctaactatagtttgtttcatgaacaatttccaacag

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccatagattggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaatgc--tctgcccttgg-cagcaaaaaaatggtttctg
| || ||||||||||| || ||  | || ||||| ||||| ||  | |||||||||||||| |||||||| |||||||||||||||||||| ||  | |||| || | |   |||| | |   || | || | | |     |   || |    ||   |    |  | |  | ||| | ||| |  || |             
GCTACATATGGGCTTGTCCACCACTGAAGGGTGAGGATTATATCCTATATTGCCATCCAGAAATTCAGAAAACACCAAAGTCTGATAAACTACGGGAATGgtcagtcta---attgtctttggtgattttcttcatacagttttcgtaggaaaatcctttacatcctccaatttgctcctggtctacacag------------

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgta-agaccatagattggcatctatg--ttgttatccttgt-taatagtgtg-gctgcatttgtggg---gtaatgctctgcccttggcagcaaaaaaatggtttctg
| ||||||||||| ||||| ||| |||| ||||||||||| ||||| ||||||||||| || |||||||| || |||||| ||||||||||  |  | |||||  ||  ||| | |  | | ||    ||||| | |  || ||| || |     ||||| |   |     |||| |||   ||||  |||                 
GCTATATATGGGCATGCCCCCCTCTTAAGGGTGAAGATTATATTTTATATTGCCATCCTGAAATTCAGAAAACGCCAAAGACTGATAAACTAAGGGAATGgtatggaatatatactttcctgtaatacttgtttttcacgtgtaagagagaatattgcatataatgatgcataatactccttccttttcag-----------------

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccataga-----ttggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaa-tgctc-tgcccttggcagcaaaaaaatggtttctg
| || ||||||||||| || ||  | || || || ||||| || || ||||| |||||||| ||||||||||| ||||| ||||||||||| ||  |||||| ||  |||  |     |||| ||  |  | || | | ||  || |      |     |   |     || ||| |  |   ||    |||               
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggatgaacttcgtaaactttcata-tgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag--------------

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 5'ss of exon 10
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaaga----ccatagattggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaatgctctgcccttggcagcaaaaaaatggtttctg----------------------
| |||||||||||||| |||||| | || |||||||| || || |||||||||||||| || |||||||| |||||||| |||||||||||  |  | |||| |||      || | | |  |       | | |  | | ||| |||| |   |   ||  ||   |||   | |   | |  |   |      |||||  ||                      
GCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATCCTGAAATTCAGAAAACACCAAAATCTGATAAACTCAGAGAATGgtgagagtagttatcgttagaaaatagaagtttgaatcattttactagtttcaat---ttcctgaaataagtttttattcctcccta-atccttctggttggtgtgcacaaaattttctatttcag

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ34595 (Selaginella moellendorffii), 5'ss of exon 9
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccatagattggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaatgctctgcccttggcagcaaaaaaatggtttctg
||||||| |||||||| || ||| ||  ||| ||||| || ||  ||||||||||||| ||||| || |||||||| ||||| |||||||| ||  | |||| |||   |  ||  |||||             ||| |   |||||   ||  |||   |                                       
GTTATATTTGGGCTTGTCCACCTCTTCGAGGAGAAGACTATATACTGTATTGCCATCCGGAGATCCAAAAGACACCTAAGTCGGATAAACTCCGAGAATGgtgagatgcttcatgagcatca-----------tttgcttgaagtgtatatgt-tttacag---------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58667255|gb|CK055941.1|CK055941
EST:     TGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTG                         GTACTTATCTATGCTTCAAAAGGCTATTAAGGAGAACATTGTTGTCGAGTT
genomic: TGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccat ... ttacacacagGTACTTATCTATGCTTCAAAAGGCTATTAAGGAGAACATTGTTGTCGAGTT
EST: gi|29681306|gb|CB677581.1|CB677581
EST:     TGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTG                         GTACTTATCTATGCTTCAAAAGGCTATTAAGGAGAACATTGTTGTCGAGTT
genomic: TGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccat ... ttacacacagGTACTTATCTATGCTTCAAAAGGCTATTAAGGAGAACATTGTTGTCGAGTT