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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgtggtttgaacttgtgaagctcgaggctatagctatttatcatgcctacccttggtta...

Basic information

species Oryza sativa
transcript LOC_Os07g47290.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G313536_T01 (Zea mays), 5'ss of exon 5
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgtggtt-tgaacttgtgaagctcgag--gctatagctatttatcatgcctacccttggtta
||||||||||||||||||||||||||||| | |||||  |||  ||||||||||||||||||||||||||||| ||||| || |||||    ||||| |  |||   |  |  | |     | |||    | |||   |  | |   |     ||| |    | ||| |||||     | ||  |   |  ||  
TGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCAACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACACTTGAAgtatgtc--catcagttgtgttgtatacttctgttaatgcatgaactcataagtataattggcttggtctgttattgctatcgcagaagca-attttcagtat

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G005493_T01 (Zea mays), 5'ss of exon 6
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttat-tatttgtcttcgaatgtgg-tttgaacttgtga--agctcgaggctat---agctatttatcatgcctacccttggtta
||||||||||||||||||||||||||||||| || |||||||  |||||||||||||| |||||||||||||||||||| ||||| |||   ||||| | |       | | || || | || || | ||   |  ||   |  || || | |  |||  |     ||   |||| |||  |||    |  ||      
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTGGGGGTTGACAAATGGTGCTTCCATGATAGGGATATTGCCCCTGATGGGAAAACTCTCGAAgtatgtcctt-----cagttgtgttgtatacttctgttaacacatgaactcaaaattataatcagcatggtctcatggaagctgttttccatatgcaaactcaca--

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AC190975.3_FGT004 (Zea mays), 5'ss of exon 3
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgtggtt-tgaacttgtgaagctcgaggctatagctatttatcatgcctacccttggtta-
||||||||||||||||||||||||||||| | ||||| ||||  ||||||||||||||||||||||||||||| ||||| || |||||    ||||| |  |||   |  |  | |     | |||    | |||   |  | |   |     ||| |      ||    | |  ||     |   ||   || 
TGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCGACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACACTTGAAgtatgtc--catcagttgtgttgtatacttatgttaatgcatgaactcataagtataattggcttggtctcttattgctatcacagaagcaattttcagtat

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G335948_T01 (Zea mays), 5'ss of exon 4
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgtggtt-tgaacttgtgaagctcgag--gctatagctatttatcatgcctacccttggtta
||||||||||||||||||||||||||||| | |||||  |||  |||||||||||||| |||||||||||||| ||||| || |||||    ||||| |  |||   |  |  | |     | |||    | |||   |  | |   |     ||| |    | ||| |||||     | ||  |   |  ||  
TGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCAACAAATGGTGCTTCCATGATAGGGATATTGCCCCGGATGGGAAGACACTTGAAgtatgtc--catcagttgtgttgtatacttctgttaatgcatgaactcataagtataattggcttggtctgttattgctatcgcagaagca-attttcagtat

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G081682_T02 (Zea mays), 5'ss of exon 6
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgtggtttgaacttgtgaagctcgaggcta--tagct--atttatcatgcctacccttggtta-----
||||||||||||||||||||||||||||| | ||||||||||  ||||||||||||||||||||||||||||| ||||| || || ||    ||||| |         | ||||  | || | |  ||||   |   |  ||||||  | |  |   ||  ||  | |||   | | | ||  ||| |   |         
TGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTTGACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACTCTTGAAgtatgtcc--------attagttgtgttgtata-cttctgttaatgcatgaactcattactcataagtataattggcttggtctgttattgctatcacagaagcaattt

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA17G07380.1 (Glycine max), 5'ss of exon 6
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtc-ttcgaatgtggtttgaacttgtgaagctcgaggctatagctatttatcatgcctacccttggtta
|||||||| |||||||||||||    || || || ||||||   ||||| ||||| ||||||||||| ||||||||||| ||||| ||   |||  | |   ||  |   |  |    ||| |||   |||  |    |  | ||  || ||    |   |  |||    |   |  |   ||    |||   
TGAGAGCTAACTTTGAGTTCATAAGCAAACTCGGTGTTGACTTTTGGTGTTTCCACGACAGGGATATAGCCCCTGATGGAAAAACTCTTGAGgtgagtcaatatttaagtttcttcacttaattgcaattcttagacaggatcaaagtgcgagatgcagtggcatatgcttaccttttttttatatctggaa-

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G57655.1 (Arabidopsis thaliana), 5'ss of exon 5
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgcc---ttcatgcataatagtcttattatttgtcttcgaatgtggtttgaacttgtgaagctcgaggctatagctatttatcatgcctacccttggtta
|||||||| ||||||||||| || |||| |||||||||||  ||||||| || |||||||| || || || ||||||||||  |||||   ||||   |    |  || |       | | ||  ||  | | |||  |    |   ||| |   ||  |  | ||||     || |  | |  |   ||  |  
TGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTTTTCATGACAGAGACATAGCACCTGATGGCACTACACTTGAGgtaactcgagcttctgaacttacaccattttgctttacattgaaactacaatctgctt-tattgcctggtgttataaaccattttggtcctgatatttcct--

upper sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv11s0052g01710.t01 (Vitis vinifera), 5'ss of exon 7
TGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttcatgcataatagtcttattatttgtcttcgaatgt---ggtttgaacttgtgaagctcgaggctatagctatttatcatgcct--acccttggtta--------------------------------------------------------------------------------------
|||||||  ||||||||||||| || ||||||||||| ||    ||||||||||||||||||||||| ||||||||||| ||||| ||   |||  | |    | ||  ||  | |  |    ||        | |   | ||  |  |    ||    | |  | | | |   |  ||||  |  |  | |||  |                                                                                      
TGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAGgtgagtcaattttcaagattatttattgccatgatgatagtttttaagattcaatatcagaaatgaggggaatgtcggttgcttacatgtttgaattcctggaaagaatgaaaatgtttttgttatatatcctttccatactcttgaaatttgcataagtgatcatatttgataaatgatgcttgttacag

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|29625366|gb|CB630377.1|CB630377
EST:     GGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACG                         GAAACAAATAAAAATTTGGATGAGATAGTTGAACTGGCAAAGAAACTCCAG
genomic: GGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttc ... cacattgcagGAAACAAATAAAAATTTGGATGAGATAGTTGAACTGGCAAAGAAACTCCAG
EST: gi|29637953|gb|CB642962.1|CB642962
EST:     GGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACG                         GAAACAAATAAAAATTTGGATGAGATAGTTGAACTGGCAAAGAAACTCCAG
genomic: GGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACGgtatgccttc ... cacattgcagGAAACAAATAAAAATTTGGATGAGATAGTTGAACTGGCAAAGAAACTCCAG