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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaataagctattttaagttatgctcatcagatagcttgccttgttagtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG

Basic information

species Oryza sativa
transcript LOC_Os02g47110.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47110.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G113995_T03 (Zea mays), 3'ss of exon 3
--gtttaataagctattttaagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG
   | |||   |  |   | ||   | || ||     |  | |  || || |   | | |||  |   |    | |||||||||||||  | || ||||||||||||||||||||||||||| ||||| |||||||||| |||||||||
gtctgtaaattgtcacagtcagggcttctaattgctgaattcgttttcttcaaccaggttaatatcgagcaattctgttgcagGCAATAATCAAAGATCCTTTGATGCTTAACAGTGTAATACTGGTACTTGCCAATAAGCAAGATATG

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G106795_T03 (Zea mays), 3'ss of exon 4
gtttaataagctattt-taagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG----------------------------------
|| |  ||   | |   | ||   |||| |||    |  ||   || || |   ||| |||  ||       | |||||||||||||  | ||||||||||| |||||||||||||| ||||||||||||||||||||||||||||||                                  
gtctg-tagattgtcagtcagagctgcttatcgctgaatttaatttcttcaaccaagttaatattgaacaattctgttgcagGCAATAATCAATGATCCTTTCATGCTTAACAGTGTCATATTGGTATTTGCCAATAAACAAGATATGGTGAGGCAACAATACTTGACCCTTCATATATATA

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G106795_T01 (Zea mays), 3'ss of exon 4
gtttaataagctattt-taagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG
|| |  ||   | |   | ||   |||| |||    |  ||   || || |   ||| |||  ||       | |||||||||||||  | ||||||||||| |||||||||||||| ||||||||||||||||||||||||||||||
gtctg-tagattgtcagtcagagctgcttatcgctgaatttaatttcttcaaccaagttaatattgaacaattctgttgcagGCAATAATCAATGATCCTTTCATGCTTAACAGTGTCATATTGGTATTTGCCAATAAACAAGATATG

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G113995_T04 (Zea mays), 3'ss of exon 4
--gtttaataagctattttaagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG----------------------------------
   | |||   |  |   | ||   | || ||     |  | |  || || |   | | |||  |   |    | |||||||||||||  | || ||||||||||||||||||||||||||| ||||| |||||||||| |||||||||                                  
gtctgtaaattgtcacagtcagggcttctaattgctgaattcgttttcttcaaccaggttaatatcgagcaattctgttgcagGCAATAATCAAAGATCCTTTGATGCTTAACAGTGTAATACTGGTACTTGCCAATAAGCAAGATATGGTGAGCCAACCACACTTGACTCCTTCTAACACGA

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|8527517|gb|AU092332.1|AU092332
EST:     TTGATNCATTGGATAGAGAGAGANTCGGAAAAGCGAAAGCGGAGTTNCAG                         GCAATCGTTAATGATCCTTTGATGCTTNACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
EST: gi|66919065|gb|CX105913.1|CX105913
EST:     TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAG                         GCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
EST: gi|2310427|gb|C26582.1|C26582
EST:     GATTCATTGGNTAGAGGAGAGAATCGGAAAAGCGAAA-CGGNAGTTTCAG                         GCAATCGTTAAT
genomic: GATTCATTGGATAGAG-AGAGAATCGGAAAAGCGAAAGCGG-AGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAAT
EST: gi|33692402|gb|CF320641.1|CF320641
EST:     TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAG                         GCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatcagatagcttgccttgttagtgaagctaaggtttggtggctttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCCAATAAACAAGATATG
                                            ctttgtt  CT-rich tract