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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgcacctcacagttctacctttaataagcaatcttctaaacttcgtctgcttgaaccatctgagttatgaaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACTGGAATCAATCATCCTAATCAGTATTTCAGTGAAAGCCAGAAAGTCTTGA

Basic information

species Oryza sativa
transcript LOC_Os07g22400.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22400.2 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G044317_T06 (Zea mays), 3'ss of exon 1
gtactgcacctcacagttctacctttaat------aagcaatcttctaaacttcgtctgcttgaaccatctga-gttatgaaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACTGGAATCAATCATCCTAATCAGTATTTCAGTGAAAGCCAGAAAGTCTTGA
||||||  | |||  |   |    ||||        |||||| |  ||  | |   |||  ||    || ||   | |||||||| |||| ||||||||||  | || ||||||||   ||| |||||||| |||||| |||||||||| ||||| ||||| |||||||||||||||||||||||  || 
gtactgtgcttcattgccattgtcttaacccgacggagcaatatgatatccctgaactgactgttttatgtgtcataatgaaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCTGGAATCAACCATCCAAATCAATATTTCAGTGAAAGCCAGAAAGTTCTGC
















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|86259469|gb|CI065342.1|CI065342
EST:     GTCATCCATTAGAAGAGATAATGGATAAAGTGAAGAACAGGCACTACCAG                         CTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACT
genomic: GTCATCCATTAGAAGAGATAATGGATAAAGTGAAGAACAGGCACTACCAGgtactgcacc ... aaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACT
EST: gi|88228226|gb|CI227706.1|CI227706
EST:     GTCATCCATTAGAAGAGATAATGGATAAAGTGAAGAACAGGCACTACCAG                         CTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACT
genomic: GTCATCCATTAGAAGAGATAATGGATAAAGTGAAGAACAGGCACTACCAGgtactgcacc ... aaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagcaatcttctaaacttcgtctgcttgaaccatctgagttatgaaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACTGGAATCAATCATCCTAATCAGTATTTCAGTGAAAGCCAGAAAGTCTTGA
         ttctaaa  putative branch site (score: 2)
                                        ttatgaaata  TA-rich tract