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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaaccttctttcacatgctctagtgaaaatgccttttgttttctcttctatgaattggtttgtgagttagacagataactttaagtcgaattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTATTCATGTCGTTTTAGAAAATTACCCTCCACCATTCCCAAAACGCGCACTC

Basic information

species Oryza sativa
transcript LOC_Os01g61580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g61580.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G897342_T01 (Zea mays), 3'ss of exon 1
-cagaaccttctttcacatgctctagtgaaaatgccttttgttttctcttctatgaattggtt-tgtgagttagacagataactttaagtcgaattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTATTCATGTCGTTTTAGAAAATTACCCTCCACCATTCCCAAAACGCGCACTC
 |  ||  ||||    | ||| |   ||      ||  |    | | | ||| || ||   || | | ||  ||   | | | |  | ||| ||||||| ||||||| |||| | ||| ||||   ||||||||||||||| |||||||| || ||||| || || |||||||| ||||| || ||||| |||||||| |||
cctaaagattctactccttgcccagttgcc--ctcccctcccctccccctctctgtatgcattgtattagagaggttgctgattccatgtccaattctgtagGGGAACTGCAATGACCATGAAACGGATGCTGGAAACCTCCTTTCCTGGGATCCATGTTGTCTTGGAAAATTATCCTCCGCCGTTCCCCAAACGCGCTCTC
















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|86831226|gb|CI297495.1|CI297495
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|88447799|gb|CI576995.1|CI576995
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGGGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|87023709|gb|CI286460.1|CI286460
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|117222253|gb|CT845768.1|CT845768
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|4716086|gb|AU057202.1|AU057202
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|88739798|gb|CI763306.1|CI763306
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGT
EST: gi|27577857|gb|CB000552.1|CB000552
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|88727221|gb|CI750876.1|CI750876
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
EST: gi|88739031|gb|CI762539.1|CI762539
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAA
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAA
EST: gi|14192082|gb|AU184293.1|AU184293
EST:     GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAG                         GGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT
genomic: GCCTCCGGCACCACCGTCGAGTTGAAGTTCTGCGCCTCCTGCTCTTATAGgtaaaaccat ... aattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttctatgaattggtttgtgagttagacagataactttaagtcgaattctgcagGGGAAATGCAGTCACCGTGAAGAAGATGCTGGAAACCTCATTTCCTGGTATTCATGTCGTTTTAGAAAATTACCCTCCACCATTCCCAAAACGCGCACTC
                             agataac  putative branch site (score: 3)
                               ataactttaa  TA-rich tract