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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagtgctgccacaaccaaactatggttgagtgactgtactaaactagtaggctaacctagtacaatttcatctgacgcttgggttttgacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG

Basic information

species Oryza sativa
transcript LOC_Os03g17120.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17120.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 5
----gtacagtgctgccacaaccaaactatggttgag-tgactgtactaaactagtaggctaac-ctagtacaatttcat-----------ctgacgcttgggttttgacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG
    |||| |   ||  ||| ||||  ||||  || | |   |||   | | | ||  ||| |  ||| ||  || |  |           ||||      || |||| || || ||||||||||| |||||||||| | |||||||||||||||||||||||| ||  || ||||
gtaggtac-gcaatgatacagccaa--tatgactgggattcttgtttcacattggtctgctgatgctaatatgatatagtagagtgcctttctgatatacaggctttggcattgtagGAGGCACTTTTAAATTCACTACCTAGACTTGTGGGCTCACTGTCTTCTTCAGTTCAGGG
















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|88358225|gb|CI605150.1|CI605150
EST:     ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAG                         GAGGGCANCTTGTAAATTCA
genomic: ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAGgtacagtgct ... gacaatgcagGAGG-CA-CTTGTAAATTCA
EST: gi|29613226|gb|CB618239.1|CB618239
EST:     ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAG                         GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC
genomic: ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAGgtacagtgct ... gacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC
EST: gi|218494800|gb|FG943469.1|FG943469
EST:     ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAG                         GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC
genomic: ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAGgtacagtgct ... gacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC
EST: gi|29670993|gb|CB667268.1|CB667268
EST:     ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAG                         GAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC
genomic: ATGACATACTGATCCAGTCCACTGGTGTTATTGGTCAGAGAATAAAGAAGgtacagtgct ... gacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actagtaggctaacctagtacaatttcatctgacgcttgggttttgacaatgcagGAGGCACTTGTAAATTCACTTCATAGACTTGTGGGCTCACTGTCTTCATCCATTGAGGG
                  tacaattt  TA-rich tract