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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actgtttatattgtgatgagagtgtctgtgttttatatcaactgccatatttgtaatacagataatatatcactgttatgcattcttcacttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAGAGATTTAATTGATAAAGCATACACAAAGCTA

Basic information

species Oryza sativa
transcript LOC_Os03g42750.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42750.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G099056_T01 (Zea mays), 3'ss of exon 18
------actgtttatattgtgatgagagtgtctgtgttttatatcaactgccatatttgtaatacagataatatatcactgttatgcattcttcacttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAGAGATTTAATTGATAAAGCATACACAAAGCTA
       | |  | || |||||  ||  | | ||| | |  ||   | |  | | | || | |    |  ||| | ||  | | || | | ||   || ||| |||||||||||||||||||||||| ||||| |||||||| ||||| |||||||| ||||||||||||||||||||||||||||||
cttattgcagggtgtactgtgacaagtttttttgt-tgtcttagagatt--cttttctgaagtggcaaacatagaccaa-gatctg-actgtttgttt-catatagATTTGCTGTCCTTGCATCACGTATGGAACAATATATCCAAGGACAATCCAGGGATTTAATTGATAAAGCATACACAAAGCTA
















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|66921504|gb|CX108352.1|CX108352
EST:     CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAG                         ATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
genomic: CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAGgtacgtgaat ... ttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
EST: gi|58665096|gb|CK053782.1|CK053782
EST:     CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAG                         ATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
genomic: CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAGgtacgtgaat ... ttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
EST: gi|58680504|gb|CK069191.1|CK069191
EST:     CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAG                         ATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
genomic: CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAGgtacgtgaat ... ttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
EST: gi|58604329|gb|CK014857.1|CK014857
EST:     CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAG                         ATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
genomic: CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAGgtacgtgaat ... ttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
EST: gi|29627167|gb|CB632178.1|CB632178
EST:     CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAG                         ATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG
genomic: CGCAATGAAAGAAATGTACGGCAGACAGGAATACTAGCCTACATTCCCAGgtacgtgaat ... ttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatttgtaatacagataatatatcactgttatgcattcttcacttgcatgtagATTTGCTGTCCTTGCATCACGAATGGAGCAATATATTCAAGGGCAATCCAGAGATTTAATTGATAAAGCATACACAAAGCTA
                                     ttcttcactt  CT-rich tract
        taatacagataatata  TA-rich tract