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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccataacttaaattgtatattctcttgtattgcagtaattgattagattaataatacaattctatttagtttcgtcctgacaaatatgaaatgaa...

Basic information

species Oryza sativa
transcript LOC_Os10g11140.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G025854_T02 (Zea mays), 5'ss of exon 7
GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccataacttaaat---tgtatattctcttgtattgcagtaattgattagattaataatacaattctatttagtttcgtcctgacaaatatgaaatgaa----
|||||||| ||||| ||||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||| ||| |     ||||    ||| |||| | || |  | |   | |      | | | | ||  ||| | | |   |   | | ||  |  | |||   ||     
GCCAATGGCGGCTTTATCATGAGTGCAAGCCATAATCCAGGTGGACCAGACAATGACTGGGGTATTAAGgtgtgctaggcaataaaaagatgtgtattgtgttttccttctacagt------ggtgatttattgaatccaagtggataatgacatggaatgtttgag-cgagcagt

upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA10G38590.1 (Glycine max), 5'ss of exon 7
GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccataacttaaattgtatattctcttgtattg--cagtaattgattagattaataata--caattctatttagtttcgtcctgacaaatatgaaatgaa
|| |||||||| || || |||||||||||||||||||| || || || ||  ||||||||||||| |||||   |  || |||    |   ||||||| |  |||    ||| ||||||    | |  |||   |||| ||  |   |   |  |    |  ||     |   
GCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAGgtg-actttatctttttctagttattctcatccattaaatagtcattgatcgattgagcaatgaccaatgctgatagttggtgctcctgaagttactgttt---

upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA20G29230.1 (Glycine max), 5'ss of exon 7
GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccataacttaaattgtatattctcttgtattg--cagtaattgattagattaataata--caattctatttagtttcgtcctgacaaatatgaaatgaa
|| |||||||| || || |||||||||||||||||||| || || || ||  ||||||||||||| |||||  | | |||  |    |   ||||||| |  |||    ||| ||| || |  |    |||   |||| ||  |   |   |  |    |  ||     |   
GCAAATGGTGGATTTATTATGAGTGCAAGCCATAATCCTGGCGGACCTGAATATGATTGGGGTATTAAGgt--gacttaatctttgctagttattctcatccattaaatagtcattaatcaattgtgcaatgaccaatactgatagttggtgctcctgaagttactgtttt--

upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 7
GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccataacttaaattgtata--ttctcttgtattgcagtaattg--attagattaataatacaattcta--tttagtttcgtcctgacaaatatgaaatgaa
|| ||||| || ||||| |||||||||||||||||||| ||||| || ||  |||| ||||||||||||||     || | | |  |    |   ||   || | |   || || ||   |    || | ||  |||   ||  |||  ||  |      ||  | ||       
GCAAATGGAGGATTCATTATGAGTGCAAGCCATAATCCTGGTGGACCTGAATATGACTGGGGTATCAAGgtgaagtatcagtaacgtgcccttacttactttttgtcctaggaactgtagtatctttgaaaaatcaagcttacttttgattatggttcatcatgtgtgg------

upper sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 5'ss of exon 7
GCCAATGGTGGCTTCATCATGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgt--atgccataacttaaatt-gtatattctcttgtattgcagtaattgattagattaataatacaattctatttagtttcgtcctgacaaatatgaaatgaa
|||||||| || || || |||||||||||||||||||| |||||||| ||  |||||||||| ||||||||  |||  |   || | |||  |||| | || | |     | || || |     | |  | |    |  | |  | || |      | |  ||   ||    
GCCAATGGAGGTTTTATAATGAGTGCAAGCCATAATCCTGGTGGGCCTGAATATGATTGGGGCATCAAGgtgaatgttaatgctcatatttatatagtgtcctttgcataattattttaaattctcagcagttttttggtttacaattacactgcaatagttactgaac---

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|58608460|gb|CK036493.1|CK036493
EST:     TGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAG                         TTCAACTATAGCAGTGGGCAGCCAGCACCAGAGACAATTACCGACCAAATA
genomic: TGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccata ... tcaattgcagTTCAACTATAGCAGTGGGCAGCCAGCACCAGAGACAATTACCGACCAAATA
EST: gi|29681950|gb|CB678225.1|CB678225
EST:     TGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAG                         TTCAACTATAGCAGTGGGCAGCCAGCACCAGAGACAATTACCGACCAAATA
genomic: TGAGTGCAAGCCATAATCCAGGTGGGCCAGATAATGATTGGGGTATCAAGgtatgccata ... tcaattgcagTTCAACTATAGCAGTGGGCAGCCAGCACCAGAGACAATTACCGACCAAATA