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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattatattttgttatcaaacttcgttactggaaaaggaaaacgatatcatggactttttcatgctatctctatatagtgtatgataccacttaaatcttcatgggctttttctactgcttccaacatttcttttacacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG

Basic information

species Oryza sativa
transcript LOC_Os12g03470.5
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G006130_T01 (Zea mays), 3'ss of exon 6
gtacattatattttgttatcaaacttcgttactggaaaaggaaaacgatatcatggactttttcatgctatctctatatagtgtatgataccacttaaatcttcatgggctttttctactgcttccaacatttcttttacacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG
                              ||    |||  ||||| || || |  |  | |  ||| ||  |||  |  ||| |  |    || | ||| || || |          ||| |||          | | ||||  |||||||||||||| ||||||||||| ||||| ||| | ||||| || |||||||||||||||||||| ||||
---------------------------aagacctagaaacaaaaacaatctctttcaagtgt--atggtaattct-cactgtgcaaaactttacctgaatatttatag----------ctggttct--------ctctgcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCACGATTCTTGAGATTTCCTG

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G077299_T01 (Zea mays), 3'ss of exon 6
gtacattatattttgttatcaaacttcgttactggaaaaggaaaacgatatcatggactttttcat-gctatctctatatagtgtatgataccacttaaatcttcatgggctttttctactgcttccaacatttcttt-tacacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG
                                                  |  || | || |   | | |   ||| |||||| ||   | |   ||         |   | |       |      ||   |||| |  | |||  ||||||||||| |||||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||| ||||
--------------------------------------------------tgctgaatttatatgttgattcttctgtatagtttactctgcttgttgtgcaagggttaacctgagtatttaacaaaaatgcttctctgcatacacacagGGACATGGCTTTCGCACAGAACTTATATCCATGATTTTGGATTTAAAACCACGATTCTTGAGATTTCCTG
















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|29667817|gb|CB664092.1|CB664092
EST:     GTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
genomic: GTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
EST: gi|29627933|gb|CB632944.1|CB632944
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGCCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
EST: gi|29624168|gb|CB629179.1|CB629179
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGCCTGCAGACACTTACAAN                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGAC
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGAC
EST: gi|33677669|gb|CF305908.1|CF305908
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
EST: gi|55410431|gb|CV722807.1|CV722807
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTATATTCC
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTA-AAACC
EST: gi|29667031|gb|CB663306.1|CB663306
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGAT
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGAT
EST: gi|29630007|gb|CB635016.1|CB635016
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGCCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
EST: gi|33675310|gb|CF303549.1|CF303549
EST:     GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAG                         GGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA
genomic: GAGTTGTATGGTTTGATCAAGTCTCTCTCATGTCTGCAGACACTTACAAGgtacattata ... acacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaaatcttcatgggctttttctactgcttccaacatttcttttacacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG
                                     tttcttttac  CT-rich tract
                                    atttctttta  TA-rich tract