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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGTCTTCCAAGTATAACTGCAGAAGAAGCAGCTCCTGAAAAGAAGGCACCAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaattactattgcaaatatgtacttgattgctcttatggtacttctttgctatcttcactcaaaatgtatgccatcttgtattttctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g50770.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G436835_T03 (Zea mays), 5'ss of exon 7
TAGTCTTCCAAGTATAACTGCAGAAGAAGCAGCTCCTGAAAAGAAGGCACCAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaattactatt-gcaaatat---------gtacttg-attgctcttatggta-cttctttgctatcttca--ctcaaaatg-tatgccatcttgtattttctgcag
||||||||| || ||||| || |||||||  || || ||||||||||| || ||||| |||||||||||||||||||||||||| || || ||||||||||||||    || || || ||  |||          || || | |||     ||  ||| ||| ||||   ||||||  |||  |||| | ||| || |||| | |  | |||
TAGTCTTCCTAGCATAACAGCGGAAGAAGGGGCCCCAGAAAAGAAGGCGCCGATACGGGTGAAATTTGAGATACCATATTTCACCGTATCAGGTATTCAGgtaatatgtttgctgtttgccgatacttgtcaatggttctagcattctatctactgtatcttatttggagtcttcagcctctgaatgctttgctatattgtctatcgttcag

upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G162145_T01 (Zea mays), 5'ss of exon 10
TAGTCTTCCAAGTATAACTGCAGAAGAAGCAGCTCCTGAAAAGAAGGCACCAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaattactattgcaaatatgtacttgattgctcttatggtacttctttgctatcttca------ctcaaaatgtat-gccatcttgtattttctgcag
||||||||| || ||||| || |||||||  || || ||||||||||||||||||||||||||||||||||||||||||||||| || || ||||||||||||||  | ||||| ||  ||     || |||  |  | || |  | | || || | |  |  |       | |   | ||| |  |  ||   ||| ||    
TAGTCTTCCTAGCATAACAGCGGAAGAAGGGGCCCCAGAAAAGAAGGCACCAATACGAGTGAAATTTGAGATACCATATTTCACCGTATCAGGTATTCAGgtaatagatttactgttcgaag---atatttgtctattgttgtacttcctcatttcaaattataagacgatttagtttttatagatacattacttttactatg-

upper sequence: LOC_Os01g50770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv00s0225g00220.t01 (Vitis vinifera), 5'ss of exon 10
TAGTCTTCCAAGTATAACTGCAGAAGAAGCAGCTCCTGAAAAGAAGGCACCAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaattactattgcaaatatgtacttgattgctcttatggtacttctttgctatcttcac----tcaaaatgtatgccatcttgtattttctgcag--
 |||||||| |||||||| || ||||||| ||||||||| |  || || || ||||| ||||| ||||||||||||||||| ||||| || || || |||||| |    || |       | |   | ||   ||    | |  | | ||   |  |||  |        || | | | || | |||     | ||||     
CAGTCTTCCCAGTATAACAGCTGAAGAAGGAGCTCCTGAGAGAAAAGCTCCCATACGTGTGAAGTTTGAGATACCATATTTTACTGTTTCTGGAATACAGgta-tgtgcttgcacacatgattgattgctctgttaaattga--gcattttgataatattcttctgataccatattctgtgtcctctctctctctctgagaag

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|58591264|gb|CF989572.1|CF989572
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
EST: gi|2311810|gb|C27965.1|C27965
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
EST: gi|29672963|gb|CB669238.1|CB669238
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
EST: gi|38471790|gb|CF955921.1|CF955921
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
EST: gi|27554506|gb|CA998406.1|CA998406
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGT
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGT
EST: gi|163927958|gb|EG714266.1|EG714266
EST:     CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAG                         GTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG
genomic: CAATACGAGTGAAATTTGAGATACCATATTTCACTGTGTCGGGTATTCAGgtaatcaaat ... ttttctgcagGTTCGCTATCTGAAGATCATTGAAAAGAGTGGGTACCAGGCGCTTCCTTGG