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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAAGCGGAAGCAGCAGCAGCAGCAGCGGCGACGAAGCCGTCCATAGATTCTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtccccctgtctcctcctcctcccgcaccatccgtcaatacagttactgctctcatcatcatccatccatcctcttctcctctctctctccttttc...

Basic information

species Oryza sativa
transcript LOC_Os01g45274.3
intron # 2
splice site 5'
intron type U2

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|29686022|gb|CB682297.1|CB682297
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33684627|gb|CF312866.1|CF312866
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|38475308|gb|CF959441.1|CF959441
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|38468721|gb|CF952852.1|CF952852
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33822852|gb|CF337231.1|CF337231
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33692811|gb|CF321050.1|CF321050
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33659185|gb|CF281798.1|CF281798
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCTATTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|29657151|gb|CB653426.1|CB653426
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33680416|gb|CF308655.1|CF308655
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|55411204|gb|CV723580.1|CV723580
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33689373|gb|CF317612.1|CF317612
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|58594391|gb|CF992699.1|CF992699
EST:     CTGCGGCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|428393|gb|D24541.1|D24541
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|33662734|gb|CF293701.1|CF293701
EST:     CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
genomic: CTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC
EST: gi|38476451|gb|CF960584.1|CF960584
EST:     CAACAACCATCCCCCACCCTCCAAG                         ATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCGAGTTCAAGACC
genomic: CAACAACCATCCCCCACCCTCCAAGgtccgtcccc ... ttgcttgcagATGGACGCCGCCGTCGACCGCCTCAAGGATGGGTTCGCCAAGTTCAAGACC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAAGCGGAAGCAGCAGCAGCAGCAGCGGCGACGAAGCCGTCCATAGATTCTTCTTCCTCCCCGTCACTCCTCACCAACAACCATCCCCCACCCTCCAAGgtccgtccccctgtctcctcctcctcccgcaccatccgtcaatacagttactgctctcatcatcatccatccatcctcttctcctctctctctccttttc

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