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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catggtgttcttgggtttactagaattactgagtaatgatattctccgtgtgctttataggaagacagtttgttaaagttataatttttttttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATCCACTGGCTGACAAG

Basic information

species Oryza sativa
transcript LOC_Os01g74460.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g74460.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G179732_T03 (Zea mays), 3'ss of exon 4
---catggtgttcttgggtttactagaattactgagtaatgatattctccgtgtgctttataggaagacagtttgttaaagttataatttttttttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATCCACTGGCTGACAAG
   || | || | |    ||| || |   |   ||||      ||  || |  | | | ||  ||   ||  | ||| |  |     |||  |||| |||||||||| || |||||||||||||||||||| ||  | || || || ||||||||||||||||| |||
tgtcaagatgatgtcaaatttgcttgctctgtcgagttccataatcatctggatacctaatgtga---caagtcgttcatttacctttttccttttcttgcagTTCTATTTTGCTGGATAACCCAGGATTTCGAACTATATGCAGCCTTTAATCCACTGGCTGATAAG
















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|29665848|gb|CB662123.1|CB662123
EST:     TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATG                         TTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC
genomic: TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATGgtgagttacc ... tttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC
EST: gi|86486002|gb|CI128635.1|CI128635
EST:     TTCAGAAGAGATGAAGATTATG                         TTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTCTTAATC
genomic: TTCAGAAGAGATGAAGATTATGgtgagttacc ... tttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC
EST: gi|87029236|gb|CI276504.1|CI276504
EST:     TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATG                         TTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC
genomic: TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATGgtgagttacc ... tttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC
EST: gi|86861206|gb|CI326645.1|CI326645
EST:     TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATG                         TTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACCCCGCTTTTAATC
genomic: TAAAGCAACTGGTCCACATAAAACCCAATTCAGAAGAGATGAAGATTATGgtgagttacc ... tttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgtgtgctttataggaagacagtttgttaaagttataatttttttttgttgcagTTCTGTTCTGCTGGATAACCCAGGATTTTGAGTTGTACGCCGCTTTTAATCCACTGGCTGACAAG
                                       tttttttttgttgc  CT-rich tract
                     agtttgttaaagttat  TA-rich tract