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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCCAAACCTGGATCTGTGAAGGTGGAGAAATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctcttcttctatactgtgaaacaatggttctgtactcattatataccttggcaatgttgcgtcattattatttccttcagcattccagtctgca...

Basic information

species Oryza sativa
transcript LOC_Os03g15780.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g15780.4 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G161337_T03 (Zea mays), 5'ss of exon 1
-------------------GTCTCCAAACCTGGATCTGTGAAGGTGGAGAAATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctcttcttct---atactgtgaaacaatggttctgtactca-ttatataccttggcaatgttgcgtcattattatttccttcagcattccagtctgca
                   || |||||||| ||||| |||||||||||||| || |||||||||||  | ||||||||||| ||||||||||| || ||||||||||| ||||||    || |  | ||   ||  |  | ||   | || ||  | |||  ||| |    |   || |   |  || |  ||      || | 
GATGACTGCGGCTTGATAGGTATCCAAACCAGGATCAGTGAAGGTGGAGAAGTTGATGAACATTGAGAGATACTCCCATGTTATGCACATCAGCTCAACGgttaggctgttcttccctcatgcaataaagttattatgatatatcaaattttacgctttgcaaattt---atagatacttgataattaaaaataatcaccttc-

upper sequence: LOC_Os03g15780.4 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G161337_T02 (Zea mays), 5'ss of exon 8
GTCTCCAAACCTGGATCTGTGAAGGTGGAGAAATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctcttcttct---atactgtgaaacaatggttctgtactca-ttatataccttggcaatgttgcgtcattattatttccttcagcattccagtctgca
|| |||||||| ||||| |||||||||||||| || |||||||||||  | ||||||||||| ||||||||||| || ||||||||||| ||||||    || |  | ||   ||  |  | ||   | || ||  | |||  ||| |    |   || |   |  || |  ||      || | 
GTATCCAAACCAGGATCAGTGAAGGTGGAGAAGTTGATGAACATTGAGAGATACTCCCATGTTATGCACATCAGCTCAACGgttaggctgttcttccctcatgcaataaagttattatgatatatcaaattttacgctttgcaaattt---atagatacttgataattaaaaataatcaccttc-

upper sequence: LOC_Os03g15780.4 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv06s0004g06320.t01 (Vitis vinifera), 5'ss of exon 9
GTCTCCAAACCTGGATCTGTGAAGGTGGAGAAATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctc--ttcttctatactgtga-aacaatggttctgtac-tcattatataccttggcaatgttgcgtcattattatttccttc------agcattccagtctgca-----------------------------------------------------
|| ||||||||||| |||||||  || || ||  | ||||| ||||| |||||||||||||||||||||||||| |||||||| |   |   || |   ||| | |   ||   || || |  |  |||| |||    |||  ||  |    | |     | |   | |      | |||   ||| ||                                                       
GTGTCCAAACCTGGTTCTGTGACTGTTGAAAAGCTCATGAATATTGAGCGCTACTCCCATGTCATGCACATCAGCTCCACGgtaaatataaattttgtaataatttatcaaggctgtttttacatatcatcataggatttgataacataatataaaaggcaatggatgctggagaaacatattagtttgttattcagtataacaactgattcattactaataaaatccttaaccggctttgcag

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|29624822|gb|CB629833.1|CB629833
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29616792|gb|CB621804.1|CB621804
EST:     CATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: CATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29616044|gb|CB621056.1|CB621056
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29662736|gb|CB659011.1|CB659011
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29646546|gb|CB651553.1|CB651553
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29662735|gb|CB659010.1|CB659010
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|25803679|gb|CA759640.1|CA759640
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGANCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29628879|gb|CB633890.1|CB633890
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
EST: gi|29614551|gb|CB619564.1|CB619564
EST:     AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACG                         GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC
genomic: AATTAATGAACATTGAACGCTACTCCCATGTCATGCACATCAGTTCCACGgttaggctct ... tgatttacagGTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCC