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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATCAAAATTGTGCGCTCCCTTCAGAAATATCGAGAGGCTGCTATGATTGAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaactactttcgtcattgctaagtcttgactctttattgagttgatggatttgcatgaatggttctatgcctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g62080.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 4
CTATCAAAATTGTGCGCTCCCTTCAGAAATATCGAGAGGCTGCTATGATTGAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaactactttcgtcattgctaagtcttgactcttt-attgagttgatggatttgcatgaatggttctatgcctgcag
||||||| ||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| ||||| |||||||||||||| |||||||| |||||||||| ||  ||| |   |  ||   |  | ||||  ||||  ||||||||||||||||||||  ||||||||||||||||||
CTATCAAGATTGTACGCTCCCTTCAGAAATACCGAGAGGCTGCTATGATAGAAATTGATGTGCTCCAGAGACTTGGGAAGCATGACTTTACTGGCAGCCGgtaagaaatttacctctcttgtt-tcacttattgatccttttgttgagttgatggatttgcatcgatggttctatgcctgcag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 4
CTATCAAAATTGTGCGCTCCCTTCAGAAATATCGAGAGGCTGCTATGATTGAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaactactttcgtcattgctaagtcttgactctttattgagttgatggattt----gcatgaatggttctatgcct-gcag
| || |||||||| || ||  | || || || || || ||||| |||||||||||||||||||| |||| |||||  | ||||||| ||   || |  ||||| | |  ||   |   |   || |  ||  |   | | ||     |||| |  |||    | || | | |||  || | | ||||
CAATTAAAATTGTTCGTTCAATACATAAGTACCGTGAAGCTGCAATGATTGAAATTGATGTGCTACAGAAGCTTGCCAGGCATGATGTTGGAGGCACTCGgtacggactctctgtctctttgtgttctgttcttggt-tgtagaagtttgaagtgttttttggtataagtcgtttcattctttgcag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S100_121V6.1 (Physcomitrella patens), 5'ss of exon 6
CTATCAAAATTGTGCGCTCCCTTCAGAAATATCGAGAGGCTGCTATGATTGAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaactac------------tttcgtcattgctaagtcttgactctttattgagttgatgga----tttgcatgaatggttctatgcctgcag--
|||||||  |  | |||    | ||||| || || || |||||||||||||||||||||||||| |  | |||||  ||  ||||    |  || |  ||||  |     | |            ||| ||  ||  || || |    ||||  |   |||  |       ||  | |     |   |   |  |||   
CTATCAAGGTCATTCGCAATGTGCAGAAGTACCGGGATGCTGCTATGATTGAAATTGATGTGCTGCGTACGCTTGCCAAAAATGACAAGATGGGCATACGgtctgatttttgcgtgtcttatactttttgtggttattatgtatatcttcttcttcttgtttctcttctccttctcgttggcagagtttaactggcaagt

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|117243444|gb|CT848361.1|CT848361
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
EST: gi|58694718|gb|CK083405.1|CK083405
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAGT
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAGT
EST: gi|58654607|gb|CK043287.1|CK043287
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
EST: gi|29665089|gb|CB661364.1|CB661364
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
EST: gi|58593129|gb|CF991437.1|CF991437
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTG
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTG
EST: gi|29679261|gb|CB675536.1|CB675536
EST:     GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCG                         CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
genomic: GAAATTGATGTGCTTCAGAGGCTTGGGAAGCATGATTTTACTGGTAGCCGgtaagcaaac ... atgcctgcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA