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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAGGAACAAGAAAAAACTCAGCGCCCACGCAAAACGTCAAAGTATATGACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttctatatatcatattgcacagtattgccaatttgatggctaatagtttaccatacagtattaataacccttgctgttgttttatag

Basic information

species Oryza sativa
transcript LOC_Os03g38960.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g38960.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G086904_T01 (Zea mays), 5'ss of exon 3
ATAAGGAACAAGAAAAAACTCAGCGCCCACGCAAAACGTCAAAGTATATGACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgt--atgtttctatatatcatattgcacagtattgccaatttgatggctaatagtttaccatacagtattaataacccttgctgttgttttatag
|||||||||| ||||| ||  ||||   |||||||||  |||| || ||||| ||||| || ||||| ||||||||||||||||| || || ||||||||||  ||  || |   | |   |      |  |   | |  ||     ||||||  | ||| ||   | ||   |                     
ATAAGGAACAGGAAAAGACCAAGCGTGAACGCAAAACAACAAAATACATGACGAAGTACGAACGTGCGCGCATCCTGGGTACACGAGCCTTGCAGATAAGgttaataattttgagtgttgaac-atgtaaaaaacctatcttccaacctaata-ctaaccttagtctttttgcag--------------------

upper sequence: LOC_Os03g38960.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G51940.1 (Arabidopsis thaliana), 5'ss of exon 3
ATAAGGAACAAGAAAAAACTCAGCGCCCACGCAAAACGTCAAAGTATATGACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttctatatatcatattgcacagtattgccaatttgatggctaatagtttaccatacagtattaataacccttgctgttgttttatag
|    |||  ||||      || || ||||||||||||||||||| |||||| |||||||||||||| || ||||| || || || || || ||||| ||||||| ||||   |   |    | ||| | ||   ||| | |       | |   |   |  ||| |||||     ||  ||   |  || ||
AAGTCGAAACAGAACCTGTGCAACGTCCACGCAAAACGTCAAAGTTTATGACCAAGTATGAGCGTGCTCGTATCCTCGGCACTCGCGCTTTGCAGATTAGgtatggttct---tgctactgagaacaatctttttaatgttaaattggcttgaaaagtttg-agtcttaatgttgttttttggc-tgatacag
















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|88215899|gb|CI215748.1|CI215748
EST:     ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCCCTTGA
genomic: ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|86506229|gb|CI148862.1|CI148862
EST:     TCCTGGGTAAACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGCTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: TCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|88517263|gb|CI444917.1|CI444917
EST:     GCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: GCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|38481397|gb|CF965486.1|CF965486
EST:     ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|86416666|gb|CI030677.1|CI030677
EST:     CCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: CCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|86536627|gb|CI176833.1|CI176833
EST:     ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|88216290|gb|CI216139.1|CI216139
EST:     CGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: CGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|86507172|gb|CI149805.1|CI149805
EST:     CGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: CGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|88907433|gb|CI090227.1|CI090227
EST:     ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|88289429|gb|CI555791.1|CI555791
EST:     CACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: CACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|38468521|gb|CF952652.1|CF952652
EST:     ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: ACAAAGTATGAGCGTGCCCGCATCCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
EST: gi|86911562|gb|CI296648.1|CI296648
EST:     CCTGGGTACACGTGCATTACAGATAAG                         CATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA
genomic: CCTGGGTACACGTGCATTACAGATAAGgtatgtttct ... tgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGA