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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggtgcacagtatatatgctggcattttgatggatcccctctttcctattcttgaattatgatgataaagaagttaaaactttctcaatgaatag

Basic information

species Oryza sativa
transcript LOC_Os07g24190.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g24190.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G025231_T02 (Zea mays), 5'ss of exon 8
GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggtgcacagtatatatgctggcat-tttgatggatcccctc-tttcctattcttgaattatgatgataaagaagttaaaactttctcaatgaatag--
 ||||| ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||||||||||||||||||||| ||||| |||||||||||||||||| |      ||  ||||  || |    ||||  |||  ||||||  || | | |||   |  ||| |  ||||   || |  | || ||  || |||    ||| ||  | ||||   
AGTTGCCAAAGCCCAGAAAGTTCCTGAAGAAGGATGGACAATGCAAGATGGAACCCCCTGGCCTGGAAACAATGTTCGTGATCATCCTGGAATGATTCAGgtaagcctta-tggcttgt--tgctaagtagtacttattgtggcatgcttcaagcatctatttgttttcccttctcttatcaccaagacaagaaaatta---ttttttctgtaaatatag

upper sequence: LOC_Os07g24190.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G028353_T02 (Zea mays), 5'ss of exon 8
GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggtgcacagtatatatgctggcat-tttgatggatcccctc-tttcctattcttgaattatgatgataaagaagttaaaactttctcaatgaatag
|||||||||||| ||||||||||| || ||||| |||||||||||||||||||| ||||||||||||||||||||||| ||||| |||||||||||||||||| |    | || |||||  || |     |||  |    ||||||  || | | |||   |  ||| |  |||||  || |  |  | ||  ||  | ||   ||||  |  |||||
GGTTGCTAAAGCCCAGAAAGTTCCTGAAGAAGGATGGACAATGCAAGATGGAACCCCCTGGCCTGGAAACAATGTTCGTGATCATCCTGGAATGATTCAGgtaagccttgttggtttgt--tgctatgtggtacttgctgtggcatgctttaagcatctatttattttcctttctttcatcaccaatacaagaaaagttaattcttctatacaaatag

upper sequence: LOC_Os07g24190.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA06G47420.1 (Glycine max), 5'ss of exon 10
GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggtgcacagtatatatgctggcattttgatggatcccctctttcc-tattc--ttgaattatgatgataaagaagttaaaactttctcaatgaatag
 ||||||||  ||  ||| || || || ||||| |||||||||||||||||||| || ||||||||||| |||||||| |||||||| |||||||| |||||  ||    || |      |  ||  | |||||||        | | | |   |||   |   ||  |||||  ||  | |  ||| ||| |    |  ||  |              
AGTTGCTAAGTCTAGGAAGGTCCCAGAAGAAGGGTGGACAATGCAAGATGGAACACCATGGCCTGGAAATAATGTTCGTGATCACCCAGGAATGATACAGgttggtaatagtta-----aaaagtaaatagtatatgaatctaaagtgtaaaatatcatgtgactctatattccattatactgagatcatatatttatacaagat--------------

upper sequence: LOC_Os07g24190.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 8
GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggt-gcacagtatatatgctggcattttgatggatcccctctttcctattcttgaattatgatgataaagaagttaaaactttctcaatgaatag
|||||| |||||||| || || || || ||||| ||||||||||| ||||| || || ||||| ||||| ||||| || ||||||||||||||||||||||||| |       |||| |||  ||     |  | || | |||    | ||||   ||   |  |    ||||||     ||  |    |                           
GGTTGCCAAAGCTCAAAAGGTCCCAGAAGAAGGGTGGACAATGCAGGATGGGACGCCTTGGCCAGGAAATAATGTCCGTGATCACCCTGGAATGATTCAGgtatat-------atttctgagagttatttatgagatgtcctga---tctgatcattcttgttctaagcattcttttgggattttctctag--------------------------

upper sequence: LOC_Os07g24190.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv18s0122g00120.t01 (Vitis vinifera), 5'ss of exon 8
GGTTGCTAAAGCTCAGAAAGTTCCCGAGGAAGGTTGGACAATGCAAGATGGAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgggtgatttgtgatggtgcacagtatatatgctggcattttgatgg-atcccctctttcctattcttgaattatgatgataaagaagttaaaactttctcaatgaatag
|||||| || || || || || || || ||||| ||||||||||| ||||| ||||| |||||||| || ||  | || ||||| ||||||||||||||||||    ||  |      | |   |    ||| | | |   | |   |||  |     || |      | |||||| |||   ||                                
GGTTGCCAAGGCACAAAAGGTCCCAGAAGAAGGGTGGACAATGCAGGATGGGACTCCATGGCCTGGGAATAACATCCGAGATCATCCTGGAATGATTCAGgtaca--cgatttgaaattcagtatatttagtttttgttgagacccattgcagttgggccttaacatgtgttcttggatttctatag------------------------------

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|572255|gb|D41766.1|D41766
EST:     GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAG                         GTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
genomic: GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
EST: gi|29624917|gb|CB629928.1|CB629928
EST:     GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAG                         GTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
genomic: GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
EST: gi|58693391|gb|CK082078.1|CK082078
EST:     GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAG                         GTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
genomic: GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
EST: gi|701331|gb|D47622.1|D47622
EST:     ACTCCCTGGGCCTGGAAACAATGTTCGCGATCACCCTGGGAATGATTCAG                         GTCTTCCTTGGCCAA-GTGGCGGCCATGACATCGAGGGTAATGAGCTACCT
genomic: ACTCCCTGG-CCTGGAAACAATGTTCGCGATCACCCTGG-AATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
EST: gi|29674793|gb|CB671068.1|CB671068
EST:     GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAG                         GTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
genomic: GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGGCCAAAGTGGCGGCCATGACATCGAAGGTAATGAGCTACCT
EST: gi|29634895|gb|CB639904.1|CB639904
EST:     GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGNAATGATTCAA                         GTCTTCCTTGG
genomic: GAACTCCCTGGCCTGGAAACAATGTTCGCGATCACCCTGGAATGATTCAGgtatgttcgg ... caatgaatagGTCTTCCTTGG