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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGCGTTGTTATGTTTACAAGATCACTTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgtatgaatatattacataactagaggcaaatatgaaatatttatttatttttgtcatttctgactcatagtattccagcatatgtattctgtccaaaact...

Basic information

species Oryza sativa
transcript LOC_Os09g28570.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G179045_T01 (Zea mays), 5'ss of exon 5
CTGGCGTTGTTATGTTTACAAGATCACTTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgtatgaatatattacataactagaggcaaatatgaaatatttatttatttttgtcatttctgactcatagtattccagcatatgtattctgtccaaaact----
  || || |||||||||||| |||||||||||||| |||| ||  |||| || |||||||||||||| ||||||||||||| || || || ||| ||| |||   |     | |||  || || ||| |   ||   |||||  | | |||| | || |   | | ||    |        
GGGGTGTGGTTATGTTTACACGATCACTTGCTCCACTGAAGCGGTATGGCATTCGTGTCAATGTACTGTGCCCTGAGgtattaagat-ttgcatgactggagcggagggatatatagctaattgtttctagtatagttgact--tcgcattc-atcacagtaactttgaaacagttcatgc

upper sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 5
CTGGCGTTGTTATGTTTACAAGATCACTTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgtatgaatatattacataactagaggcaaatatgaaatatttatttat---ttttgtcatttctg-actca-tagtattccagcatatgtattctgtccaaaact
  || || ||||||||||||||||||||| |||||||||||||||||||| | ||||||||||| |||||||| ||||||| || | |  |||| |||  |   |||| | |  ||| | || ||   || | | |||| || |||   |  | ||  || || | | || ||||  ||   
GGGGTGTGGTTATGTTTACAAGATCACTTTCTCCATTGAAACGCCATGGTGTTCGTGTCAATGTGCTCTGCCCGGAGgtattaagaaaccacatgacttaatcaaaattttat-tatctgttgatctgttctataatttgtgtacttgcttttgttttagtatttttgtt-tgtcttaa---

upper sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv03s0063g00610.t01 (Vitis vinifera), 5'ss of exon 5
CTGGCGTTGTTATGTTTACAAGATCACTTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgta----tgaatatattac-ataactagaggcaaata--tgaaatatttatttatttttgtcatttctgactcatagtattccagcatatgtattctgtccaaaact
 ||| || ||| | ||||| ||||||||||| || |  |||||||| || || ||||||||||| || ||||||||||||      || || |||  ||    | |||  ||    ||| || ||    | |  |  | | || ||  || |    ||   | || | | || ||| ||     
GTGGTGTGGTTCTATTTACCAGATCACTTGCACCTTATAAACGCCACGGAATTCGTGTCAATGTGCTTTGCCCTGAGgtaatttcaaacattttaggattgtgaaaggagaactgttgagattttagaatgtactcttaagttgtg--tcgtgaacttt--gtat-tattttatgtacatgg--

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|29670807|gb|CB667082.1|CB667082
EST:     TTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAG                         TTTGTTCAAACTAATATGGCAGAGCAACTAAGTCGTCGAATAATAGATGTA
genomic: TTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgtatgaatat ... ttatgtgcagTTTGTTCAAACTAATATGGCAGAGCAACTAAGTCGTCGAATAATAGATGTA
EST: gi|58688798|gb|CK077485.1|CK077485
EST:     TTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAG                         TTTGTTCAAACTAATATGGCAGAGCAACTAAGTCGTCGAATAATAGATGTA
genomic: TTGCTCCATTGAAACGCCATGGTATACGTGTCAATGTACTCTGCCCTGAGgtatgaatat ... ttatgtgcagTTTGTTCAAACTAATATGGCAGAGCAACTAAGTCGTCGAATAATAGATGTA