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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCATCCCCGACGGCATCGACAAGAACGGCAAGCCCCACAAGCTCCGCCTCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagctagtagtgtttttcttgctccatcgatctcaaccacaagacatgagctaactaacatcgacatcgtccctgatcgatcgatcag

Basic information

species Oryza sativa
transcript LOC_Os02g01340.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01340.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G059083_T02 (Zea mays), 5'ss of exon 2
CGTCATCCCCGACGGCATCGACAAGAACGGCAAGCCCCACAAGCTCCGCCTCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaa-ctagctagtagtgtttttcttgctccatcgatctcaaccacaagacatgagctaactaacatcgacatcgtccctgatcgatcgatcag
||||||| | || |||   ||||||||||||||||| ||||||||| | |||||||||||||||||||||||| |||| || |||| ||||||||||||||| | | |   | || |       ||  |  ||  ||   |   |     ||  |   |  || |   | || | |   |    |  |      
CGTCATCGCGGATGGCGAGGACAAGAACGGCAAGCCGCACAAGCTCAGGCTCTACTCCATCGCCAGCAGCGCCCTCGGAGATTTCGGCGACTCCAAGACGgtgagccaatgattaatacaaa--ttaattaattaattatatgtatgtatcaccattaagatagctatggcaacttttgttgatgtgcag----

upper sequence: LOC_Os02g01340.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G059191_T01 (Zea mays), 5'ss of exon 2
CGTCATCCCCGACGGCATCGACAAGAACGGCAAGCCCCACAAGCTCCGCCTCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagctagtagtgtttttcttgctccatcgatctcaaccacaagacatgagctaactaacatcgacatcgtccctgatcgatcg--atcag--------
| ||||| | || |||   ||||||||||||||||| ||||||||| | || ||||||||||||||||||||| |||| || |||| ||||||||||||||| | |    |    |   || |||||| ||  || |     ||         |  |       ||    || || | | |   |||   ||||         
CATCATCGCTGATGGCGAAGACAAGAACGGCAAGCCGCACAAGCTCAGGCTATACTCCATCGCCAGCAGCGCCCTCGGAGATTTCGGCGACTCCAAGACGgtcagtcatcacc--tagcttgcttgcttcacggaacctttgcatggttttacaaatcctctgtat-attattgttcataaataatccgtatcaaacaaaacg

upper sequence: LOC_Os02g01340.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G66190.2 (Arabidopsis thaliana), 5'ss of exon 3
CGTCATCCCCGACGGCATCGACAAGAACGGCAAGCCCCACAAGCTCCGCCTCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagctagtagtgtttttcttgctccatcgatctcaaccacaagacatgagctaa-ctaacatcgacatcgtccctgatcgatcgatcag
 || || || || || || ||||||||||| ||||| ||||||||| | || ||||| ||||| || || ||||| || ||||| |  ||||||||||| ||||   || | || |   | |        |   |          |  | |||| ||   || |  | || || |  |||  |  |        
AGTGATTCCAGAGGGAATAGACAAGAACGGGAAGCCGCACAAGCTCAGGCTTTACTCTATCGCGAGTAGTGCCATTGGTGACTTTGGAGACTCCAAGACCgtaa---gcaaataatccctctaacaactaactaaataatgatttacaaaatgatcttctcttatctggaaatggatccttttgcag-------

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|38479097|gb|CF963230.1|CF963230
EST:     CTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACT-CAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: CTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|25798321|gb|CA754282.1|CA754282
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCNAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|33656206|gb|CF278820.1|CF278820
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGGCTGGTGTACACCAACGATCAGGGGAGAGA
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGG-CTGGTGTACACCAACGATCAGGG-AGAGA
EST: gi|4880924|gb|AU065223.1|AU065223
EST:     TCTACTCCATCGCCAGCANCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTG-GTGAAGAGGCTGGTGTACACCAA
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAA
EST: gi|8956400|gb|BE230203.1|BE230203
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|58595302|gb|CF993610.1|CF993610
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGAT
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGAT
EST: gi|58611960|gb|CK039672.1|CK039672
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACAC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACAC
EST: gi|29676003|gb|CB672278.1|CB672278
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|58594835|gb|CF993143.1|CF993143
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAG
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAG
EST: gi|58588294|gb|CF986602.1|CF986602
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|58662943|gb|CK051629.1|CK051629
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|38477836|gb|CF961969.1|CF961969
EST:     TCTACTCCAGCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|33817858|gb|CF334761.1|CF334761
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACGCCAACGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATC
EST: gi|58588807|gb|CF987115.1|CF987115
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGA
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGA
EST: gi|33653470|gb|CF276084.1|CF276084
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATTCGCTGTGCGTGA
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTAT-CGCTGTGCGTGA
EST: gi|33661411|gb|CF292378.1|CF292378
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|58607665|gb|CK035698.1|CK035698
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTG
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTG
EST: gi|8956756|gb|BE230559.1|BE230559
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATAAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|33661543|gb|CF292510.1|CF292510
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATC
EST: gi|33662396|gb|CF293363.1|CF293363
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|29658349|gb|CB654624.1|CB654624
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGAGGCTGGTGTACACCAACGATCAGGGAGAGATC
EST: gi|44677984|gb|CR291418.1|CR291418
EST:     TCTACTCCATCGCCAGCAGCGCCATCGGGGATTTCGCCGACTCCAAGACG                         GTATCGCTGTGCGTGAAGA
genomic: TCTACTCCATCGCCAGCAGCGCCATCGGGGACTTCGCCGACTCCAAGACGgtaactagct ... gatcgatcagGTATCGCTGTGCGTGAAGA