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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtattctatttgaattgaatcctgagtaatgttttccatcatggtaaaag

Basic information

species Oryza sativa
transcript LOC_Os02g40030.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133226_T02 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaag-----
 ||||| || ||||| |||||||||||| |  ||||||| || ||||| ||  || |  | || || ||||||||||| ||||||||||||||||| ||||||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  ||||||||      
TAATAGTGATCCATCAGTGCCTTCTGATTCACTATTCTTTGTGCCGTTTAGGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctag

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133226_T03 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaag-
                                                     || |  | || || ||||||||||| ||||||||||||||||| ||||||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  ||||||||  
---------------------------------------------------GTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaag

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaag-----
                                                 ||  || |  | || || ||||||||||| ||||||||||||||||| ||||||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  ||||||||      
-------------------------------------------------AGGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctag

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133226_T01 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaag-----
                                                     || |  | || || ||||||||||| ||||||||||||||||| ||||||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  ||||||||      
---------------------------------------------------GTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctag

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G020976_T01 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtattctatttgaattgaatcctgagtaatgttttccatcatggtaaaag
|||||| || ||||| |||||||||||| |  ||||||| || ||||| ||  || ||||||| || ||||||||||| ||||||||||||||||| ||||||||||   | | | || || || |    | ||    | | |||| | | || |||   | |   ||   |  | | ||                      
AAATAGTGATCCATCAGTGCCTTCTGATTCACTATTCTTTGTGCCGTTTAGGTTATTGTTGCGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgactcccttacatagaagattaatgtttttaataattaggcacttgcatttactgttctttctttggtaaatag---------------------

upper sequence: LOC_Os02g40030.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G133226_T06 (Zea mays), 5'ss of exon 3
AAATAGCGAGCCATCCGTGCCTTCTGATGCGTTATTCTTCGTTCCGTTCAGAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaag-
 ||||| || ||||| |||||||||||| |  ||||||| || ||||| ||  || |  | || || ||||||||||| ||||||||||||||||| ||||||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  ||||||||  
TAATAGTGATCCATCAGTGCCTTCTGATTCACTATTCTTTGTGCCGTTTAGGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaag

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|88422800|gb|CI573962.1|CI573962
EST:     GAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATG                         TTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA
genomic: GAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttct ... atggtaaaagTTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA
EST: gi|58667565|gb|CK056251.1|CK056251
EST:     GAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATG                         TTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA
genomic: GAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttct ... atggtaaaagTTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA
EST: gi|88422801|gb|CI573963.1|CI573963
EST:     GAATACTGTTGCGTACTACACCTCTTTATTTGGCTTATTTACTCTATATG                         TTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA
genomic: GAATACTGTTGCGTACTACACCTCTTTCTTTGGCTTATTTACTCTATATGgtatgcttct ... atggtaaaagTTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACA