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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatattattctctcctcttgatatcagtacaatgttaaaattttgaacacgcatctaatctattttcactctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG

Basic information

species Oryza sativa
transcript LOC_Os05g07070.8
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g07070.8 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G118344_T05 (Zea mays), 3'ss of exon 6
gtagatattattctctcctct-tgatatcagtacaatgttaaaattttgaacacgcatctaatctattttcactctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG
||| ||  | ||   |  | | | |||      | |   | || | |||  |  | | |||||  | || || | | ||||||| |||||||||||  |||||||| ||||||||||||| |||||||  |  || ||||||||||||||||| |||||||||||||| ||||| ||||||
gtaaatggtgttaattattttctcataattacgcgaacatgaattcttgt-cgtgtaactaatacagttgcattgtatgtagCGTTTTATGATGCTAAATCAGTTATTTATCCATGAATCGAGAGAAGATTCTGACCCTCACTGGGACATGAGGCTGGACATTGATGATATGAGTTATGAG

upper sequence: LOC_Os05g07070.8 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv13s0019g04100.t01 (Vitis vinifera), 3'ss of exon 4
----------------gtagatattattctctcctcttgatatcagtacaatgttaaaatt-ttgaacacgcatctaatctattttcactctttgtagCGGTT--TATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG
                |   ||| || |    |    ||     |   || | || |  || || |  |    ||  || ||| |    | |   |   || |   || ||| ||||    | |    |  |||  || ||| |    || ||||   |  |||||||||| |||||||||||||||||||| ||||||
attctggattctccttgattatagtactactgcaaagtggatgtatagcagttttcattttgttaattatatgtcgcatatatctgttatttccatgcagGCTGTCATAATGGTGGACAGCTCATCCTTGTATGGTTCCAGAAATTTGTTTGATCAGTATGGGGACATGAGGCTGGACATTGATGACATGAGTTATGAG
















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|33678771|gb|CF307010.1|CF307010
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|218487704|gb|FG958473.1|FG958473
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCATGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|29633286|gb|CB638295.1|CB638295
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|66914386|gb|CX101234.1|CX101234
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|218502858|gb|FG946692.1|FG946692
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|29646727|gb|CB651734.1|CB651734
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
EST: gi|14981531|gb|BI306209.1|BI306209
EST:     TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAG                         CGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC
genomic: TTCATCATTTGATGATTGAAGACAATAACTTGGGAAGATCAGCAGCTGAGgtagatatta ... ctctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagtacaatgttaaaattttgaacacgcatctaatctattttcactctttgtagCGGTTTATGATGCTGGATCAGTTAGTTATCCATGAATCAAGAGAAGCATTCGATCCTCACTGGGACATGAGACTGGACATTGATGACATGAGCTATGAG
                             atctaat  putative branch site (score: 3)
                                   tctattttcactcttt  CT-rich tract
       aatgttaaaattttga  TA-rich tract