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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactatctccttcactctagctctttggatatgtttagattccacttagatctgcttaatttggattgcctgtcattcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTGTACCAGTCTGGTTTCTCTCATAGGCTCAAG

Basic information

species Oryza sativa
transcript LOC_Os07g49270.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 16
gtaactatctccttcactctagctctttggatatgttta---gattccacttagatctgcttaatttggattgcctgtcattcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTGTACCAGTCTGGTTTCTCTCATAGGCTCAAG
      ||  || |  ||||| |||| |  || |||||     || ||||  |||  | |||| | |||||||| |||   ||||||||||| |||||||| || ||||| ||| | |||||||| ||||| |||||||| |||||||| || |||||||| |||||||||
---gtaatgcccctatctctatctctgtc-atgtgttttcccaatcccacccagaggttcttagtctggattgcttgttgctcttggcagCTTTGGAAGCTGAGCTCATGTGACTTGTGTGAAATCGCTAGAAATTCTGTCTACCAGTCCGGATTCTCTCACAGGCTCAAG
















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|58694980|gb|CK083667.1|CK083667
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
EST: gi|33675288|gb|CF303527.1|CF303527
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
EST: gi|29663749|gb|CB660024.1|CB660024
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGA
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGA
EST: gi|218478545|gb|FG960299.1|FG960299
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGACTATAGCATCGCTGCTTCG                         CTGTGGAAGCTACGTTCATGCGCAC-TATGTGAAATTGCTAGGAATTCTGT
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCG-ACCTATGTGAAATTGCTAGGAATTCTGT
EST: gi|163927650|gb|EG712446.1|EG712446
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
EST: gi|58593125|gb|CF991433.1|CF991433
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
EST: gi|163926592|gb|EG713608.1|EG713608
EST:     TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCG                         CTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG
genomic: TTCACCTGACAAAAGAACCTTTGGTTGAAGAATATAGCATCGCTGCTTCGgtaactatct ... ttcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttagattccacttagatctgcttaatttggattgcctgtcattcttggcagCTGTGGAAGCTAAGTTCATGCGACCTATGTGAAATTGCTAGGAATTCTGTGTACCAGTCTGGTTTCTCTCATAGGCTCAAG
                       gcttaat  putative branch site (score: 4)
                                          tcattctt  putative PPT
                         ttaattt  TA-rich tract