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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTGTAGCCTATCTATCTCGTGTTCTCGAGGTTGCATTCAGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaatcttaacttcaaaattgtttttatgttttcatgaactaagaatatgagaaaccaatatattacgagattagaatagtgcactattgtatat...

Basic information

species Oryza sativa
transcript LOC_Os12g13590.2
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g13590.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM5G823484_T01 (Zea mays), 5'ss of exon 6
AATTGTAGCCTATCTATCTCGTGTTCTCGAGGTTGCATTCAGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgt-----aaatcttaacttcaaaattgtttttatgttttcatgaactaagaatatgagaaaccaatatattacgagattagaatagtgcactattgtatat
||||||||||||||| ||||||||||| ||||||||||||||||| || ||||| ||||| ||||||||||||||||||||||||||||||     | | |  | ||| |   |    |   | |||   |||| ||     |||   || ||| ||  |    ||  | |    |    ||    | | 
AATTGTAGCCTATCTCTCTCGTGTTCTTGAGGTTGCATTCAGTGCCCTTGAAGGCCTCAACAAACAGTCCTTTTTGACTGAGCTGgtatgtttccaatagcggaccttgattttcagatccttttttgggtgaattacagccatgg--aagcaacatggttattga--aaatctatatcttacaagaca-

upper sequence: LOC_Os12g13590.2 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 5'ss of exon 20
AATTGTAGCCTATCTATCTCGTGTTCTCGAGGTTGCATTCAGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaatcttaacttcaaaattgttttt--atgttttcatgaactaagaatatgagaaacc-aatatattacgagattagaatagtgcactattgtatat
| |||| || ||||| |||||||| || |||| |||||||| ||| ||||||||||| ||||| ||  | ||  |||||||  ||||||| | ||| | |  || |   | | ||   || |  |   |  |   || |   |   ||| || || |     || |    |  |    | |  | |  
AGTTGTGGCATATCTTTCTCGTGTGCTTGAGGCTGCATTCACTGCCCTAGAAGGTCTTAATAAGCAAGCTTTCCTGACTGAATTGgtatg-atatcgtgatctctatgatatcttcggatataatatggttccttgactgctactgacccaaaatttcttttgacttcttttttctggtttcatgt--
















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|33689209|gb|CF317448.1|CF317448
EST:     AAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTG                         GGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
genomic: AAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaat ... tttgccttagGGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
EST: gi|87029720|gb|CI274401.1|CI274401
EST:     AGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTG                         GGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
genomic: AGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaat ... tttgccttagGGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
EST: gi|66920327|gb|CX107175.1|CX107175
EST:     CATTCAGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTG                         GGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
genomic: CATTCAGTGCTCTAGAAGGTCTCAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaat ... tttgccttagGGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
EST: gi|33689213|gb|CF317452.1|CF317452
EST:     CAATAAACAGTCCTTTTTGACTGAGCTG                         GGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT
genomic: CAATAAACAGTCCTTTTTGACTGAGCTGgtatgtaaat ... tttgccttagGGAAATCGCTTGCATAAGGGGCTACTCAATCATTGGCAGAAGTTCACATTT