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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttttgtgccaactatggtagatatattaatgtcgaaaactcatccactcggtggagttttttttaaagaacttttttaagtttactttccagtgtaatagaagctaactgtggtgttagcaccttttttttttttgcagaaggcattcttaattgatttcctgtttatgatttgcatttgttctgcttactcagATAATTCCTTTGACATACAACAAGGAGAAAAGAGCTTGGTATCTTGAGAGGGAGTTGCCTGTGAGTATCAAAATCAGCATTATATTATCAATTTCTAGAC

Basic information

species Oryza sativa
transcript LOC_Os03g01750.6
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01750.6 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G052546_T04 (Zea mays), 3'ss of exon 9
gtatgcttttgtgccaactatggtagatatattaatgtcgaaaactcatccactcggtggagttttttttaaagaacttttttaagtttactttccagtgtaatagaagctaactgtggt-gttagcaccttttttttttttgcagaaggcattcttaattgatttcctgtttatgatttgcatttgttctgcttactcagATAATTCCTTTGACATACAACAAGGAGAAAAGAGCTTGGTATCTTGAGAGGGAGTTGCCTGTGAGTATCAAAATCAGCATTATATTATCAATTTCTAGAC
                                                                                                 | |  ||    | | |    |    |   |   ||   | |||||     |   | ||            || |   ||||||  |||| | ||      ||||| |||||||||||||||  |  |||||||| ||||||||| ||||||||  |||||||||                                        
------------------------------------------------------------------------------------------------ggggctatgatggttgaacaagcccatctacctgttacatgtttttattagatataatcccgtgcataagtctctaactgatttctatttatcct-----ttcagAGAATTCCTTTGACATATGATGAGGAGAAAGGAGCTTGGTTTCTTGAGAAAGAGTTGCCT----------------------------------------
















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|58656051|gb|CK044731.1|CK044731
EST:     ATAGTTGTTCTTCTGTTGAAATTTCTGGGCTTGATGTCGGGTGGGGACAG                         ATAATTCCTTTGACATACAACAAGGAGAAAAGAGCTTGGTATCTTGAGAGG
genomic: ATAGTTGTTCTTCTGTTGAAATTTCTGGGCTTGATGTCGGGTGGGGACAGgtatgctttt ... gcttactcagATAATTCCTTTGACATACAACAAGGAGAAAAGAGCTTGGTATCTTGAGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggcattcttaattgatttcctgtttatgatttgcatttgttctgcttactcagATAATTCCTTTGACATACAACAAGGAGAAAAGAGCTTGGTATCTTGAGAGGGAGTTGCCTGTGAGTATCAAAATCAGCATTATATTATCAATTTCTAGAC
                                            tgcttac  putative branch site (score: 2)
                                         ttctgctt  CT-rich tract
     attcttaattgattt  TA-rich tract