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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactccagtgctcctctcagttttcttctcctcttcctctctgaatccgatttggccatgcttccccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCATGGGGAACGTTCTCAGCGCCAACCTTGGCCAAGCCCCGGCGAGGCAAGC

Basic information

species Oryza sativa
transcript LOC_Os01g02020.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g02020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G860137_T01 (Zea mays), 3'ss of exon 2
-----------------------gtaaactccagtgctcctctcagttttcttctcctcttcctctctgaat--ccgatttggccatgcttccccacaa---ccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCATGGGGAACGTTCTCAGCGCCAACCTTGGCCAAGCCCCGGCGAGGCAAGC
                        |   ||||   | |  |  | |  | |  |       | ||    |||  |||         || | || | |||   ||||  ||||||| ||| || || || || |||||||||||||||||||| |||||||| ||||| |||||||||||||||||||| || ||||| ||||| ||
gtacgtacctttcgcgccactcgctcggctccgacgtttttggccgcat-cagcaataacccatcaacaaattgccgcaacacgtgtggtccctcccaaatcccagGTGCTCTCAAGAGGGCGAAGGTCGACCCGGCGCTCGTGCAGGAGGTTTTCATGGGCAACGTCCTCAGCGCCAACCTTGGCCAGGCTCCGGCAAGGCAGGC
















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|88343346|gb|CI627306.1|CI627306
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88377671|gb|CI605506.1|CI605506
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88736278|gb|CI759786.1|CI759786
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|117240405|gb|CT842781.1|CT842781
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88736391|gb|CI759899.1|CI759899
EST:     TCCCTCTCCTCCCTCCCCGCCNAC-AAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: TCCCTCTCCTCCCTCCCCGCC-ACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88369645|gb|CI582840.1|CI582840
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88314350|gb|CI604834.1|CI604834
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|29641199|gb|CB646206.1|CB646206
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|58588269|gb|CF986577.1|CF986577
EST:     TCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGGGCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: TCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCC-GTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88360863|gb|CI625169.1|CI625169
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|29675316|gb|CB671591.1|CB671591
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88735500|gb|CI759008.1|CI759008
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGC                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|33804994|gb|CF328374.1|CF328374
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|58590983|gb|CF989291.1|CF989291
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|29634957|gb|CB639966.1|CB639966
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88411332|gb|CI564453.1|CI564453
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88420882|gb|CI620200.1|CI620200
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88371085|gb|CI597562.1|CI597562
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88340793|gb|CI636953.1|CI636953
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|29640750|gb|CB645757.1|CB645757
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|426273|gb|D22134.1|D22134
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88389914|gb|CI626683.1|CI626683
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|58654730|gb|CK043410.1|CK043410
EST:     GTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|88392592|gb|CI625414.1|CI625414
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
EST: gi|58608101|gb|CK036134.1|CK036134
EST:     CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTGCGGCGCCATCCAGG                         CCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA
genomic: CTCCCTCTCCTCCCTCCCCGCCACCAAGCTCGGCTCCGTCGCCATCCAGGgtaaactcca ... ccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttctcctcttcctctctgaatccgatttggccatgcttccccacaaccagCCGCTCTCAGGAGAGCAAATGTGGAGCCGGCGCTCGTGCAGGAGGTCTTCATGGGGAACGTTCTCAGCGCCAACCTTGGCCAAGCCCCGGCGAGGCAAGC
                                      tgcttcccc  CT-rich tract