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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgccatctgagtgtttttttttcatctcttctgctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag

Basic information

species Oryza sativa
transcript LOC_Os11g03780.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30470.1 (Glycine max), 5'ss of exon 7
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgccatctgagtgtttttttttcatctcttctgctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag
||  || |   |||| ||||||||||||||||||||||||||||| ||||||||||  |||||||| ||||| ||  | || ||||  |||  ||| || ||   |   | ||| |   ||   | |    |||| |  | | || ||  ||  |   ||   || |   |||| |       |||   ||   ||
GAAAGATAGAGTTGGACCCTGGGAACAGAGACCTGGGCACTTTGGTGATGTTTGGAGCTATTGGACAGATGAAGGATTTGGTTATTTTGAGGGTCTTCAAgtaagtac-atttattatgataacaatcacattttgttgt-tattgtgaaattcaatcat--gacaagccattttttt-----tttgtgtgtgtag

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30150.1 (Glycine max), 5'ss of exon 8
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagtta-atgccatctgagtgtttttttttcatctcttctgctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag
||  || ||  |||| ||||||||| ||||||| |||||||||   ||||| |||||||||||||| || |||||  | || | ||  |||   ||||| ||   | ||  ||  ||  ||    |     |  |    || |  | |  |  | |   |  | |  || |  |||| | |   || || || |   
GAAAGACACGGTTGGACCCTGGGAAGAGAGACCAGGGCACTTTAATGATGTATGGAATTATTGGACTGACGATGGATTTGGTTTTTTTGAGGGCCTCCAAgtaggttttcctttcatatcagtaaataaactcatgggtatttaattt--ttcctattgaattgaaaaacttattcttctgt--ttctcgtgcag--

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30450.1 (Glycine max), 5'ss of exon 8
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgc-catctgagtgtttttttttcatctcttctgcta-tcaacata-tctaacgaaatatttctaccgaaattttcatggaaag-----------------------
||    | | ||||| || |||||  ||||||||||||||||||| ||||||||||  || ||||| |||||||| || || ||||| ||||||||||| ||   ||    || |     ||   ||  |    || | || |      ||| || |  || ||||         | |||  |||||  | ||  | |                        
GAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGTTATTATGAGTTTCTCCAAgtaagtgcctctttacatatattgtagcttaggattatgatgttcgtatctagtcgaattactctagttgtgctatgctagtgaaatgat-atatataattattattataatttttgagcag

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G00630.1 (Glycine max), 5'ss of exon 7
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagtt----aatgccatctgagtgtttttttttcatctcttctgct--atcaacatatctaacgaaatatttctaccgaaattttcatggaaag
||  || ||  |||| || |||||| ||||||| || |||| ||||||||| |||||||||||||  ||||| ||  | || |  |  |||   || || ||     ||  ||    ||   |||     | |   | ||| || | |  |  |  ||  | | ||| | | |  | |||||   | |              
GAAAGACACAGTTGGACCATGGGAAGAGAGACCAGGACACTATGGAGATGTATGGAATTATTGGAGTGATGACGGATTTGGTTTCTTTGAGGGCCTTCAAgtagggtttccttttataaactcatgcatatatggatatttaatttttcttattgaattgagaaatcgatctatttgtttctcgagcag-------------

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G27460.3 (Glycine max), 5'ss of exon 8
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatg-------ttagttaatgccatctgagtgtttttttttcatctcttctgctatcaa-catatctaacgaaatatttctaccgaaattttcatggaaag-------------------
||  | | || |||| || |||||  ||||||||||||||||||| ||||||||||  || ||||| |||||||| || || ||||| ||||||||||| ||   ||       | |  || ||        |  | |  | ||||| |||  |   || |  | | | |   |  ||  |  |      || |  ||    |                    
GAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGCTATTATGAGTTTCTCCAAgtaagtgcctcttttcatatattgtagctgaggaatatgatgttcatatctagttgaattactcttgttttgtgctatgctagtgaaatgatatatattattattattattatttttgagcag

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30460.1 (Glycine max), 5'ss of exon 7
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgccatctgagtgtttttttttcatctcttctgctatcaacata-tctaacgaaatatttctaccgaaattttcatggaaag
||  || |||||||| || |||||  |||||||||||||| |||| ||||||||||| |||||||  ||||||||  | || | ||  |||| ||||| ||||  | ||  || |   | | | | |   ||| |       || |||  || || ||| | | |   |||||||||   | |              
GAAAGATACTATTGGACCATGGGAGGAGAGACCTGGGCACCTTGGTGATGTTTGGAACTATTGGAGTGATGATGGAATTGGTTTTTTTGAGTATCTCCTGgtgagtattcttttacaac-tataattaaatttgtc------ctgctga-ataaatataatatgatttaatatttcttgagcag-------------

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgccatctgagtgtttttttttcatctcttctgctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag
||  |||||  |  |  | |||||| |||||||||| || | ||| ||||||||||| || ||||| ||||||||||| ||  | |  || ||  | || ||  | |  | ||  | |  |  |   ||| | | | ||| |    || |   |  ||  ||||        |   | | ||  |||| || |   
GAAAGAAACCGTGAGAGCTTGGGAAGAGAGACCTGGCCATTATGGTGATGTTTGGAAGTACTGGACTGATGATGGCCTTGGCCACTTTGAATTCTTTCAAgt--aagggatttttttcttttcg---gttctatatccatttaaagtgtttcaataattactaa------gctcgaaacaaatatttcttgtag--

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaatgccatctgagtgtttttttttcatctcttct-gctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag
||  |||||  | || || |||||| ||||||| || || ||||| ||||||||||| |||||||||||||||||||| ||  | |  |||||  | || |||    ||  |   | | || |||||   |  |  ||  |    || | |||  | ||||  || |||  |||  | | |                
GAAAGAAACCGTAGGACCTTGGGAAGAGAGACCGGGCCATTTTGGTGATGTTTGGAAGTATTGGACCGATGATGGCCTTGGCCACTTTGAGTTCTTTCAAgtgagacttcttcttttctat-tgagtacataatgatccccgaagctcgttattga-atattaaatgaa-cattcttgcag----------------

upper sequence: LOC_Os11g03780.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 5'ss of exon 9
GAGGGAAACTATTGGTCCCTGGGAACAGAGACCTGGGCACTTTGGAGATGTTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgttagttaa-tgccatctg---agtgtttttttttcatctcttctgctatcaacatatctaacgaaatatttctaccgaaattttcatggaaag-----------
||   | || ||||| ||||||||  |||||||||| |||||||| ||||||||||| || ||||| |||||||| || || ||||  ||||| || || || | | |     |  || ||  ||   |   |||| |||  ||||       | |  |||  |   | || ||  | ||   | ||||| ||                  
GAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGGAAGTACTGGACTGATGATGGACTTGGTTATTTTGAGTTCCTTCAAgtatgtatcttccacctgtcaattgtgaaagattttatttatatcttagtgattgt--acaatttccatgagatgctgcttaggtaatttacaaatgttttgtttctgtag

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|33796127|gb|CF323929.1|CF323929
EST:     TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAG                         CTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATGGTTG
genomic: TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgtta ... tcatggaaagCTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATG-TTG
EST: gi|33796277|gb|CF324005.1|CF324005
EST:     TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAG                         CTTTCTGAAGACCTGGGTGCTGCCC-TATTTTGGGGTGTTCAATGGCTG
genomic: TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgtta ... tcatggaaagCTTTCTGAAGACCTGGGTGCTGCCCCTATTT-GGG-TGTTCAATGT-TG
EST: gi|27548162|gb|CA766165.2|CA766165
EST:     GAGTTTCTCCAG                         CTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATGTTG
genomic: GAGTTTCTCCAGgtgtatgtta ... tcatggaaagCTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATGTTG
EST: gi|88722894|gb|CI746404.1|CI746404
EST:     TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAG                         CTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATGTTG
genomic: TTTGGAATTATTGGACCGATGATGGCCTAGGATATTACGAGTTTCTCCAGgtgtatgtta ... tcatggaaagCTTTCTGAAGACCTGGGTGCTGCCCCTATTTGGGTGTTCAATGTTG