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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctgcctaccatttacaaattgcagaccacaacagttagctgtaatttagttacattcatggtattgtatctttttactgatgcatctatgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTCAG

Basic information

species Oryza sativa
transcript LOC_Os03g02756.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 4
-ttctgcctaccatttacaaattgcagaccacaacagttagctgtaatttagttacattcatggtattgtatctttttactga---tgcatctatgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTCAG
 ||   | |    | |     ||     ||  |  | || |   |   ||   ||   |  | ||   | |||||  |  ||    |||||||||||||| |||| |||||||||||||||||   |||   |||||||||||||||||||||||||
gttaaacttgtagtctttttcttcttttcccaattattttggcttgtctt---taagattgtagtgcag-atcttactgatgcatttgcatctatgaactgcagGATTCAACTCAACTCTGCGTCAAGGATGCATAACTCATCATGAATATATTCAG
















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|29615116|gb|CB620129.1|CB620129
EST:     GTAAGGCCTCCCCTGTCATCAATATCAGTGAGGATATTTATGCAG                         GGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATGTTC
genomic: GTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAGgtagggctag ... tgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
EST: gi|300216075|gb|HO088701.1|HO088701
EST:     AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAG                         GGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATGTTC
genomic: AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAGgtagggctag ... tgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
EST: gi|88399969|gb|CI588273.1|CI588273
EST:     AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAG                         GGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
genomic: AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAGgtagggctag ... tgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
EST: gi|33679231|gb|CF307470.1|CF307470
EST:     AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAG                         GGTTCAACTCAACTCTGCGCTTANGGAACATAACTCATCATGAATATATTC
genomic: AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAGgtagggctag ... tgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
EST: gi|29675246|gb|CB671521.1|CB671521
EST:     AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAG                         GGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC
genomic: AATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAGGATATTTATGCAGgtagggctag ... tgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttagttacattcatggtattgtatctttttactgatgcatctatgaactccagGGTTCAACTCAACTCTGCGCTTAGGGAACATAACTCATCATGAATATATTCAG
                               tactgat  putative branch site (score: 2)
                  tattgtatcttttta  TA-rich tract