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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgttttcaaatgtcttcttgttatgattacaatatgaagttcccagttattatgttaaatagcacagctgtacaagatacagaaaactggttaa...

Basic information

species Oryza sativa
transcript LOC_Os05g38370.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g38370.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G035922_T02 (Zea mays), 5'ss of exon 4
TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgttttcaaatgtcttcttgttatgattacaatat-gaagttcccagttattatgttaaatagcacagctgtacaagatacagaaaactggttaa
|||||| || ||||||||||||||| |||| ||||| ||||| ||||||||||||||| | || ||||| ||||||||||||||||| || ||||||||  | | | |   |    |  |||  || | |  |  |||     |||||||||| | |  ||||||| ||||||| | | |    |      |  
TGCAACCCTTATTTTTGAGGTGGAGCTAGTAGCTTGCAGGCCGAGGAAAGGTTCAAGCTTAGGTAGTGTATCTGATGAGAAAGCCAGACTTGAgtaagacatctcctatcattccatctttaacat-atagcacagaaaaaatcagttattatatgatttagcacaactgtacatgttccctcgagtgaactct

upper sequence: LOC_Os05g38370.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT3G55520.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgttttcaaatgtcttcttgttatgattacaatatgaagttcccagttattatgt---taaatagcacagctgtacaagatacagaaaactggttaa
||||||  | ||||| |||||||| || || |||||||| || ||||||||| | ||  | || ||||||||||| |||| ||||||||||||||||| | || | ||||  | | | |   | | |    | |||     |  ||||| ||||   ||||||  | | || |      |   |    | |     
TGCAACTTTGATTTTCGAGGTGGAATTGGTTGCTTGTAGACCGAGGAAAGGTGCTAGTGTTGGAAGTGTTTCTGAAGAGAGAGCCAGGCTAGAgtaag-tattat-aaataccatttggacctaact----tttga-----cttgttatcatgtgtgtaaatatgaaaacttttttgcttcatggttgcag-----

upper sequence: LOC_Os05g38370.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv13s0019g01900.t01 (Vitis vinifera), 5'ss of exon 5
TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt--ttcaaatgtcttcttgttatgattacaatatgaagttcccagttattatgttaaatagcacagctgtacaagatacagaaaactggttaa----
|||||| ||  |||||||||||||||| || || || ||||| ||||| ||||||||| |  | ||||||||||||||||  || ||||| |||||||   ||  ||| |        || || | ||     | |||  | |||| |   ||     |  ||||      | || |  | | |  | |  ||||    
TGCAACCCTTGTTTTTGAGGTGGAGTTGGTAGCCTGCAGGCCAAGGAAGGGTTCAAGCATCAGTAGTGTTTCTGATGAGAGGGCTAGGCTTGAgtaagtcattatttctatcaatcgtttcttctaatgcttttgtgatttacccattc--taaaaagagcagcatgatgatccatgtca-aaaccattttttaatcag

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|88282653|gb|CI404049.1|CI404049
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88838265|gb|CI373625.1|CI373625
EST:     GGAAA-GTTCAAGCCTGGGCGGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTCCCACCAAGGAGGAAGAGAA
genomic: GGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88487060|gb|CI424331.1|CI424331
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|25044727|gb|AJ420710.1|AJ420710
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88204275|gb|CI204124.1|CI204124
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88209738|gb|CI209587.1|CI209587
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|14571477|gb|BI118845.1|BI118845
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCCACCAAGGAGGAAGAGA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCC-ACCAAGGAGGAAGAGA
EST: gi|88836064|gb|CI371169.1|CI371169
EST:     -GAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGGCCAGGCTATA                         GGAACTAAAGAAGCAGCGA-ATCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: GGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAA-GCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|38477260|gb|CF961393.1|CF961393
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCT
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCT
EST: gi|88267523|gb|CI379458.1|CI379458
EST:     A-GAAAGGTTCAAGCCTGGGCACTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|109711641|gb|CI013246.1|CI013246
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|86417638|gb|CI031847.1|CI031847
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88281942|gb|CI403338.1|CI403338
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88513582|gb|CI441088.1|CI441088
EST:     GTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
genomic: GTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACCAAGGAGGAAGAGAA
EST: gi|88980703|gb|CI022414.1|CI022414
EST:     AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGA                         GGAAC-AAAGAAGCAGCGAGAGCTAG-T-CTGCCACCCAAGG
genomic: AGGAAAGGTTCAAGCCTGGGCAGTGTTTCTGATGAGAAAGCCAGGCTAGAgtaagatgtt ... atttccttagGGAACTAAAGAAGCAGCGAGAGCTAGCTGCTGCCACC-AAGG