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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagtcgttgtctatactatcatgaatataaaacaagtatagattgtatcatcttactgcttggtaaatactaattttgtacgaaccaccacatttgcagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATATCAAGGCCAGTAATATATTGATTGATGATGAGTTTAACGCCAAAATATCT

Basic information

species Oryza sativa
transcript LOC_Os11g01740.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g01740.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G162702_T01 (Zea mays), 3'ss of exon 3
gtagtcgttgtctatactatcatgaatataaaacaagtatagattgtatcatcttactgcttggtaaatactaattttgtacgaaccaccacatttgcagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATATCAAGGCCAGTAATATATTGATTGATGATGAGTTTAACGCCAAAATATCT
    | |   ||     | |  ||| || |  ||   | |   | |     | | |||| |||  ||| |  |||||  ||   |   | | || | ||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||| |||| ||||| |||||||| ||||||||||| ||||||||||| 
aacatagccatcccctgtttggtgattagatgacctattttcttggctatctgtcactggttgtaaaacataaatttgatatagagtgctaaatctacagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCACCGTGACATCAAGTCCAGCAATATCTTGATTGACGATGAGTTTAATGCCAAAATATCA
















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|569184|gb|D40033.1|D40033
EST:     CTCTCACTTGGCTAGCGCGCATGAAAATTCTTTTGGGTACTGCAAAGGC                         CCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATAT
genomic: CTCTCACTTGGCTAGCGCGCATGAAAATTCTTTTGGGTACTGCAAAGGCgtgagtaact ... acatttgcagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATAT
EST: gi|58607362|gb|CK035395.1|CK035395
EST:     TCTCTCACTTGGCTAGCGCGCATGAAAATTCTTTTGGGTACTGCAAAGGC                         CCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATAT
genomic: TCTCTCACTTGGCTAGCGCGCATGAAAATTCTTTTGGGTACTGCAAAGGCgtgagtaact ... acatttgcagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatcatcttactgcttggtaaatactaattttgtacgaaccaccacatttgcagCCTTGCTTACTTACATGAGGCAATTGAACCAAAAGTTGTGCATCGTGATATCAAGGCCAGTAATATATTGATTGATGATGAGTTTAACGCCAAAATATCT
                       tactaat  putative branch site (score: 1)
                   taaatactaattttgt  TA-rich tract