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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtacaactacactcgcagagattaccggccttgcatcagctagctataagctcaagctgctaaacatttcgattgcttttgaagCTCGTGGTATGGGGATGAACGGCCGCGGTGGCTAGGCCCCGTGCCGTACGAGTACCCGGCGCATCTCACCGGAGAGTACCCTGGCGATTACGGGTTCGAT

Basic information

species Oryza sativa
transcript LOC_Os09g12540.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g12540.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 1
gtagtacaactacactcgcagagattaccggccttgcatcagctagct--ataagctcaagctgctaaacatttcgattgcttttgaagCTCGTGGTATGGGGATGAACGGCCGCGGTGGCTAGGCCCCGTGCCGTACGAGTACCCGGCGCATCTCACCGGAGAGTACCCTGGCGATTACGGGTTCGAT
   || ||    |  ||       | |        | | ||  | | |  ||  |    |||||   | |     |    |  ||| ||||  ||||| || |  || ||||| |||||||| || |||||||| ||||| ||||| | | || | || |||||||||||||| ||||| |||||||||
---gtgcagtc-cgttctattgcttcattaaaaggggaacacgtcgtttgatttgtctgagctgt--atccgagtggcaacgattgcagCTTTTGGTACGGTGGAGATCGGCCACGGTGGCTTGGTCCCGTGCCTTACGACTACCCTGAGTATTTGACAGGAGAGTACCCTGGAGATTATGGGTTCGAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgcatcagctagctataagctcaagctgctaaacatttcgattgcttttgaagCTCGTGGTATGGGGATGAACGGCCGCGGTGGCTAGGCCCCGTGCCGTACGAGTACCCGGCGCATCTCACCGGAGAGTACCCTGGCGATTACGGGTTCGAT
                            tgctaaa  putative branch site (score: 2)
                                           ttgctttt  putative PPT
                               taaacattt  TA-rich tract