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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCTTTTGAGGTCCTTGTACGCAGGCAGATCAGCAGATTGCTTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctgacacctttttttgccacttgtctggcattgccgtatgctaatgcctagtatatctttgtggatatgctttttcttaatatgccacttgca...

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G180335_T03 (Zea mays), 5'ss of exon 3
GTACCTTTTGAGGTCCTTGTACGCAGGCAGATCAGCAGATTGCTTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgt---tagacctgacacctttttttgccacttgtctggcattgccgtatgctaatgcctagtatatctttgtggata-tgctttttcttaatatgccacttgca
|| || ||||| ||||||||||| ||||||||||||||||||||||||||||| ||||||||||||   |||||||| ||||| || || |||||   ||  |    ||   |||||||||  |  ||  ||| |    |||||   | | | |   |    |   | |  ||| || |    |  | | | | |  
GTTCCATTTGAAGTCCTTGTACGTAGGCAGATCAGCAGATTGCTTGATCCAAGTCTTCAGTGTGCACAGTTCATATATGATGAACTTGTAAAGgtatatactctctccattattttttgcc-ttcctcgagcaat-ttatatgcctgt-cttggcgcagtggtaaagctgctgccttgtgaccagtttcgagtcgt-

upper sequence: LOC_Os01g69130.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G129155_T01 (Zea mays), 5'ss of exon 11
GTACCTTTTGAGGTCCTTGTACGCAGGCAGATCAGCAGATTGCTTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgt---tagacctgacacctttttttgccacttgtctggcattgccgtatgctaatgcctagtatatctttgtggatatgctttttcttaatatgccacttgca
|| || ||||| ||||||||||| ||||||||||||||||||||||||||||| ||||||||||||   |||||||| ||||| || || |||||   ||  |     |   |||||||    || ||  ||| |     |  ||       |||| |    |  ||   | |    |     || ||  |  |  
GTTCCATTTGAAGTCCTTGTACGTAGGCAGATCAGCAGATTGCTTGATCCAAGTCTTCAGTGTGCACAATTCATATATGATGAACTTGTAAAGgtatatactctcttaattattttttggtctttctcgagcagtctgtcagtctgtcttggagtacagaacttagggcgtacccagtgccg-taggcttcccg--

upper sequence: LOC_Os01g69130.1 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 12
GTACCTTTTGAGGTCCTTGTACGCAGGCAGATCAGCAGATTGCTTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctgacacctttttttgccacttgtctggcattgccgtatgctaatgcctag-tatatctttgtggatatgctttttcttaatatgccacttgca
|| || ||||| || |||||  | ||||| ||     | ||| | ||||||||||||||||||||  | |||||||| |||||| |||| ||||| |||    | |   ||  ||| || || | ||   |||  | |   | ||    |  | || |  ||   |  || ||   ||  |             
GTGCCGTTTGAAGTTCTTGTGAGAAGGCAAATAGCTCGTTTGTTAGATCCAAGCCTTCAGTGTGCTAGATTCATATATGATGAGTTAGTAAAGgt-aga----aaattcttacttggcattt-tatgctcttggggcactattatatgcatctttaacactgatcaagtgattccactccag------------

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|58672080|gb|CK060766.1|CK060766
EST:     TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAG                         ATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
genomic: TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctg ... ttttgtgtagATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
EST: gi|58679026|gb|CK067713.1|CK067713
EST:     TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAG                         ATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
genomic: TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctg ... ttttgtgtagATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
EST: gi|58658952|gb|CK047632.1|CK047632
EST:     TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAG                         ATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
genomic: TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctg ... ttttgtgtagATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
EST: gi|58695675|gb|CK084362.1|CK084362
EST:     TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAG                         ATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
genomic: TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctg ... ttttgtgtagATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
EST: gi|66928093|gb|CX114941.1|CX114941
EST:     TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAG                         ATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT
genomic: TTGATCCAAGCCTTCAGTGTGCAGGTTTCATATACGATGAGCTAGTCAAGgttagacctg ... ttttgtgtagATGAGCCATCGCTGTCTTGCTGTTGAGCTGCAGCAGTTTCCTCTGCTCCGT