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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTTGCTATTTCACGTGTCATGGTGGCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggaccagttcaccattttttggttatttatatgccacatcatatgcattttcacactcttcttttttgcacgaattgaaatag

Basic information

species Oryza sativa
transcript LOC_Os01g06600.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM5G862219_T01 (Zea mays), 5'ss of exon 1
-----------------------GTCCTTGCTATTTCACGTGTCATGGTGGCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggaccagttcaccattttttggttatttatatgccacatcatatgcattttcacactcttcttttttgcacgaattgaaatag-------------------------
                       || || || ||||||||  | |||||||||||||||||| |||| |||||||||||||| || ||  | ||||| ||||| |     |  |   |  || ||    ||  |    ||||    || | ||  | | | | | || |||   |   |  |||                            
CTATTCTCACTGTGTGCAAGCAGGTGCTCGCCATTTCACGCATTATGGTGGCATGGCAACCGGTTGGCATATCAATGGGGGTCTTCGACATGTGCCACCGgtacg---tggcgccatacgttctgacacttctttcatcacaggcaatcctttcaccccccccttttcttttgtcatgtaaaaaacaaaaaaacaaaaaccgatcgaaacag

upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM5G862219_T02 (Zea mays), 5'ss of exon 10
GTCCTTGCTATTTCACGTGTCATGGTGGCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggaccagttcaccattttttggttatttatatgccacatcatatgcattttcacactcttcttttttgcacgaattgaaatag-------------------------
|| || || ||||||||  | |||||||||||||||||| |||| |||||||||||||| || ||  | ||||| ||||| |     |  |   |  || ||    ||  |    ||||    || | ||  | | | | | || |||   |   |  |||                            
GTGCTCGCCATTTCACGCATTATGGTGGCATGGCAACCGGTTGGCATATCAATGGGGGTCTTCGACATGTGCCACCGgtacg---tggcgccatacgttctgacacttctttcatcacaggcaatcctttcaccccccccttttcttttgtcatgtaaaaaacaaaaaaacaaaaaccgatcgaaacag

upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA03G07540.1 (Glycine max), 5'ss of exon 10
GTCCTTGCTATTTCACGTGTCATGGTGGCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggaccagttcaccattttttggttatttatatgccacatcatatgcattttcacactcttcttttttgcacgaattgaaatag
|| |||||| ||||||| || ||||| || |||||||| ||||||||||| |||||  | |  ||| | || ||  ||||| |   | || |  || || |  | | ||| ||    ||    |   ||||    ||   | ||  |     |           
GTACTTGCTGTTTCACGCGTAATGGTTGCTTGGCAACCCATTGGTATATCGATGGGCATCTACGATATGTGTCACAGgtattgcttaatt-agaatgttatcat-acttacat-tttcactgcaaatatttctgaacctgtattgatcaatag-----------

upper sequence: LOC_Os01g06600.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv08s0105g00460.t01 (Vitis vinifera), 5'ss of exon 10
GTCCTTGCTATTTCACGTGTCATGGTGGCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggac-cagttcaccattttttggttatt-tatatgccacatcatatgcatttt---cacactcttc--ttttttgcac---gaattgaaatag------
|| |||||| |||||||||||||||| || |||||||| || || || |||||||| |  | |||| | || ||  |||||  |     |  |  || | |  | | || | | |  |  ||||     |||||     ||  ||||  | | |||||    || || || | |      
GTGCTTGCTGTTTCACGTGTCATGGTTGCCTGGCAACCTATAGGCATTTCAATGGGAGCCTATGATATGTGTCACAGgtattaatgtgataaatgatatgtatgctgttctctttatctgatcaccactattttgtcttcagccttcagtatgttgcattctgattttaagtggttgaag

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|29658082|gb|CB654357.1|CB654357
EST:     CGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCG                         GTATC-GAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
genomic: CGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggacca ... attgaaatagGTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
EST: gi|88344179|gb|CI654609.1|CI654609
EST:     GCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCG                         GTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
genomic: GCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggacca ... attgaaatagGTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
EST: gi|56157778|gb|C26441.2|C26441
EST:     CATGGCAACCGATTGGTATATCAATGGGGGGTGTTTGATGTCTGCCATCG                         -TATCTGAAAGAAAGG
genomic: CATGGCAACCGATTGGTATATCAATGGGGG-TGTTTGATGTCTGCCATCGgtatggacca ... attgaaatagGTATCTGAAAGAAAGG
EST: gi|29668419|gb|CB664694.1|CB664694
EST:     GATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCG                         GTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
genomic: GATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggacca ... attgaaatagGTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
EST: gi|29660291|gb|CB656566.1|CB656566
EST:     GCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCG                         GTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT
genomic: GCATGGCAACCGATTGGTATATCAATGGGGGTGTTTGATGTCTGCCATCGgtatggacca ... attgaaatagGTATCTGAAAGAAAGGAAACAGTTTGGAGTTCCTCTAGTAGCTTTTCAGCT