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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...accattacaattgtgatatcttcttagcatgcatatattttgatttggaacatgtgacgtgatttattttgctaccatgaattaacacaagggaatgcagGACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAGCATCTAACTAAGCTTTTCCCAAATAAAGTGACGATCCAGCCACCAAAA

Basic information

species Oryza sativa
transcript LOC_Os03g22420.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G042074_T02 (Zea mays), 3'ss of exon 10
-----accattacaattgtgatatcttcttagcatgcatatattttgatttggaacatgtgacgtgatttattttgctaccatgaattaacacaagggaatgcagGACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAGCATCTAACTAAGCTTTTCCCAAATAAAGTGACGATCCAGCCACCAAAA
      |   | || |  || ||| |   ||  |  ||||| ||    | | |    |     ||     | ||   ||  || |  |||   | || |||||||||| |||||     || || ||| ||||||||||||||||||||  |||||||| |||  || |||||||||||||||||||   || || ||||| ||
ggagggcgtctgcagtcttgttatttg--tactaatcatatgtt---gtctagtttctactttgttggcgaattccatattataacctaatctatggaaatgcagGACATTGATGCGATAAATGGTAATAATAAAGAAACTTCAAAGGCAGCGAAGCATTTAATCAAACTTTTCCCAAATAAAGTGATACTCGAGGCACCACAA

upper sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GLYMA06G17940.1 (Glycine max), 3'ss of exon 15
--------------------------------accattacaattg--tgatatcttcttagcatgcatatattttgatttggaacatgtgacgtgatttattttgctaccatgaattaacacaagggaatgcagGACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAGCATCTAACTAAGCTTTTCCCAAATAAAGTGACGATCCAGCCACCAAAA
                                  ||  || |||      ||| |  ||  | |   ||| | ||  ||  | |  | |        |||  |  || || ||  ||  |        | |   |  || ||   | | | ||| | |   || ||| |  ||||| | |  ||     |||||||||||||||||||||||||||| || ||    |||   
gtaagaacatcatctccttatattcgaaagagcacaacacgatttatctgtatatatttgtcttttgtatgtcttccttctggatttttctgccacgttaaatctctcccttgttttctctatctatcagGATAGTTTTGGAAGATTGCA-TGACAGGGGAAAGGAAGCCCCAAAGCCAAACAAAACCTTAACTAAGCTTTTCCCAAATAAAGTGACTATTCACATGCCAC--
















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|33675853|gb|CF304092.1|CF304092
EST:     TTCTTTCAAAGTTCCCATACAGCCAAGCAATACTTGACTTTGCATTTCAG                         GACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAG
genomic: TTCTTTCAAAGTTCCCATACAGCCAAGCAATACTTGACTTTGCATTTCAGgtagttttaa ... gggaatgcagGACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaacatgtgacgtgatttattttgctaccatgaattaacacaagggaatgcagGACTTTGATCGTGGAACTGATAAGAATAAAGAAACTTCAAAGGCGACGAAGCATCTAACTAAGCTTTTCCCAAATAAAGTGACGATCCAGCCACCAAAA
                                  aattaac  putative branch site (score: 2)
              tgatttatttt  TA-rich tract