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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattgattgtagcctttccttttatgaatttgatcagtaaaactgtagtgtttcatttcttcaatcaccactctggagaatgcaccatct...

Basic information

species Oryza sativa
transcript LOC_Os06g05180.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G095348_T03 (Zea mays), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattgattgtagcctttccttttatgaatttgatcagtaaaactgtagtgtttcatttcttcaatcaccactctgg---agaatgcaccatct
|||||||||||||||| |||| ||||||||||||||||||||||| ||||| || ||||||||||||||||||||||||||||||||||||||||||||||| |  |     | | || | |  | ||  | ||| |  |  |    |   | | |  |   | ||| | | || |    ||||||    | ||     | | 
GTCATTTGGATCTGCACTGGAATTTGTTTGGTCATCAGAAGGAGAATATGCAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtatt-ctagtttagtttattgtttctctctctatcagatgcaagtttctcatt-tcttccataattacgtaaaccttacctctggtttggcatctgtaaac-

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtt--tggcccacattgatt-gtagcctttccttttatgaatttgatcagtaaaactgtagtgtttcatttcttcaatcaccactctggagaatgcaccatct
 |||||||| |||||| |||| ||||||||||||||||||||||| ||||| || ||||||||||||||||||||||||||||||| |||||| ||||||||   ||| |  | ||  ||  | |  ||||  | ||| |||| | | | | | |    | | | |||||||||| ||    || ||  | | |||  |    
ATCATTTGGGTCTGCACTGGAATTTGTTTGGTCATCAGAAGGAGAATATGCAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAGgtacatggtctgctttagtttattgtttttctatatattaatt-gcttaatcagatgcaaatttctcatttcttccatagttac-ctaaacattgcctctgg-

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtt-tggcccacattgattgtagcctttccttttatgaatttgatcagtaaaactgtagtgtttcatttcttcaatc---accactctggagaatgcaccatct
 |||||||| || ||| |||| ||||||||||| ||||| || ||||||||| | || ||||||||||| |   | || |||||||| |||   || |||||| ||   ||| || | |    | | || ||||||   ||   | |  |  |  ||  || |      || ||||    |  | | ||   || | |      
ATCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCAGATGGGGAGTATGCTGTAAGAGAAAGTACATCGAAGGTTAAAATTTTCAGCAAAAATTTCCAGgttgtgcttcactttcagttactcttatcattttatactttgtcttatgacgaaagtgatggtgacaacctacaattctaaataatttgttaaaaggata----

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattgattgtagcctttccttttatgaatttgatcagtaaaactgta-gtgtttcatttcttcaa----tcaccactctggagaatgcaccatct
||||||||| || ||| |||| ||||||||||| || || ||||| |||||| |||| |||||||||||||  || || |||||||| |||   || ||||||||  |    || |        |||||| |  | |  | |  || |     | |  ||||       |  |||    |  | | |    | || | |      
GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttaaaaactttgtttcctctc-taatctcgtgcaatcttgttctgtgtgtaatgaaccaacaagttcttgctatttcttaaaaggaaaa----

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattgattgtagcctttccttttatgaatttgatcagtaaaactgtagtgtttcatttcttcaa----tcaccactctggagaatgcaccatct
||||||||| || ||| |||| ||||||||||| || || ||||| |||||| |||| |||||||||||||  || || |||||||| |||   || ||||||||  |    ||        | |||||| |      ||   | |         | ||||       |  |||    |  | | |    | || | |      
GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttttaaacttcatttcctctctaatcttgtgtgatcttgttctttgtgtaatgaaccaacaagttcttgctatttcttaaaaggaaaa----

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattgattgtagcctttcctttt--atgaatttgat-cagtaaaactgtagtgtttcatttcttcaatcac-cactctggagaatgcaccatct
||| ||||| || |||||||| ||||| ||||||||||| || || |||||| |||| |||||||||||||   | ||||||||||||||    || ||||||||   | | |   ||||  |  |    |    ||  ||| | | || || |  | ||    | ||| | |             |||  |||  ||      
GTCTTTTGGTTCGGCATTGGAATTTGTATGGTCATCAGATGGTGAATATGCTGTCAGAGAAAGTACATCAAAGGTTAAGATTTTCAGTAAGAATTTCCAGgtttgtgtcccctcctttgtttctctctgatgagaatagattaggtgcaatatatatatatatatgcatgtgtgtgtgtgtgtgtgctgctgaaaacatt----

upper sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 12
GTCATTTGGATCTGCATTGGAGTTTGTTTGGTCATCAGAAGGAGAGTATGCTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggcccacattga---ttgtagcctttccttttatgaatttgatcagtaaaact-gtagtgtttcatttcttcaatcaccactctggagaatgcaccatct-
 |||||||| || ||  |||| ||||||||||||||||| | ||| |||||| | ||||||||||||||||| || ||||||||||| ||| |||| ||||||| |  |   |  |   ||  |  ||  |   ||||  ||  |  |  |    |  | |   |  || | ||||  |     |     | | |     |||| 
ATCATTTGGCTCAGCGCTGGAATTTGTTTGGTCATCAGATGCAGAATATGCTGTGAGGGAAAGTACATCAAGGATTAAGATTTTCAGCAAAACATTCCAGgttttgatcctttcaaagtttagattctcacgacttattgatgggggcttttctccaagcaaattagcaatgcttcttttgttgc-----aaagttgtttatctt

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|29630380|gb|CB635389.1|CB635389
EST:     CTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAG                         GAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGA
genomic: CTATCAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtttggccca ... caatatgcagGAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGA