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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagcaaccccatctctgatccgctctactctactctactgttcctccacacaaatccatgtgatggcggatggcctcctcgcgttagttcttgtttgcttcaatttcacgctgtcacacgtacgaggtggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAGGCGCTCGTCAGCAGCGGCCGCACG

Basic information

species Oryza sativa
transcript LOC_Os05g36270.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g36270.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G322953_T04 (Zea mays), 3'ss of exon 1
gcaagcaaccccatctctgatccgctctactctactctactgttcctccacacaaatccatgtgatggcggatggcctcctcgcgttagttcttgtttgcttcaatttcacgctgtcacacgtacgaggtggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAGGCGCTCGTCAGCAGCGGCCGCACG
                                  |  || |  ||   |   || |    | |  |  |     |  | |  ||  ||| |  |  | | || |  |||| |  | ||| |   | |        | ||||| |||||||| |||||||| || || || |||||||| |||||||| |||||||||||||||||||||||||| 
----------------------------------cgatattcgtctatctggcacagtttttttctctctt-cagtttacctgctctagctgctcgtcg-ttgacattcagga-gccaccc---caaaaaaaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAGGCGCTCGTCAGCAGCGGCCGCACC
















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|33679306|gb|CF307545.1|CF307545
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88574436|gb|CI666205.1|CI666205
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAG
EST: gi|88306899|gb|CI639319.1|CI639319
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGA
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGA
EST: gi|88354625|gb|CI678668.1|CI678668
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88434653|gb|CI690933.1|CI690933
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|29670800|gb|CB667075.1|CB667075
EST:     GGCCAGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: GGCC-GGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|29663073|gb|CB659348.1|CB659348
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88575554|gb|CI669699.1|CI669699
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTC
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTC
EST: gi|29644325|gb|CB649332.1|CB649332
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88328095|gb|CI649896.1|CI649896
EST:     GGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGNTC-AG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCA
genomic: GGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACG-TCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCA
EST: gi|33684972|gb|CF313211.1|CF313211
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88329945|gb|CI652332.1|CI652332
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|33688486|gb|CF316725.1|CF316725
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|33683625|gb|CF311864.1|CF311864
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88309089|gb|CI654708.1|CI654708
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|86877142|gb|CI311444.1|CI311444
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCT
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCT
EST: gi|88325180|gb|CI646601.1|CI646601
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGA
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGA
EST: gi|29656833|gb|CB653108.1|CB653108
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88332374|gb|CI656243.1|CI656243
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88575220|gb|CI669365.1|CI669365
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAG
EST: gi|33688998|gb|CF317237.1|CF317237
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|33686898|gb|CF315137.1|CF315137
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|33693501|gb|CF321740.1|CF321740
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
EST: gi|88592321|gb|CI710419.1|CI710419
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAG                         GGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGCGACACCAACGTCCAGgcaagcaacc ... ggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagttcttgtttgcttcaatttcacgctgtcacacgtacgaggtggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAGGCGCTCGTCAGCAGCGGCCGCACG
               ttcaattt  TA-rich tract