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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtggttgtatcacttcttcatgctgttctttcaataaaaagtctcaatccattctactagtagaagcagattaacatcttcttgaggtacaagcagGCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATATGGACAAAAACACACGAGCGAAATGCTCGTCGTGTTCTCAACCTGATGA

Basic information

species Oryza sativa
transcript LOC_Os06g48770.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48770.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 3
gtgtggttgtatcact--tcttcatgctgttctttcaataaaaagtctcaatccattctactagtagaagcagattaacatcttcttgaggtacaagcagGCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATATGGACAAAAACACACGAGCGAAATGCTCGTCGTGTTCTCAACCTGATGA
|||||||| |||  ||  |||  ||| ||||  | ||  | | || | |  ||||||||     | ||| | ||||||||||||||||| | |||||||||| ||||||||||||||| |||||||| || |||||||||||  |||||||||||  |||||||| |||||||||||||| ||||| |||||||||||||
gtgtggttctattcctgttctcaatgatgtttgtccag-agacagcccct-tccattct----ctcgaaacggattaacatcttcttgatgcacaagcagGCTGTTCAGAAGAGAGTTCAATGGGTTAGCACTGGTAAAAAGAGTGCTATATGGAAGAAAACACATGAGCGAAATGCTCGCCGTGTCCTCAACCTGATGA
















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|88306342|gb|CI638125.1|CI638125
EST:     GGCGCCTCAAAGTCTTTTCCATGGCCTTGTTTATATACTTCGACTATAAG                         GCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATA
genomic: GGCGCCTCAAAGTCTTTTCCATGGCCTTGTTTATATACTTCGACTATAAGgtgtggttgt ... gtacaagcagGCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATA
EST: gi|88306181|gb|CI636562.1|CI636562
EST:     GGCGCCTCAAAGTCTTTTCCATGGCCTTGTTTATATACTTCGACTATAAG                         GCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATA
genomic: GGCGCCTCAAAGTCTTTTCCATGGCCTTGTTTATATACTTCGACTATAAGgtgtggttgt ... gtacaagcagGCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcaatccattctactagtagaagcagattaacatcttcttgaggtacaagcagGCAGTTCAGAAGAGAGTTAAATGGGTTGGCGCTGGTAAAAAGGATGCTATATGGACAAAAACACACGAGCGAAATGCTCGTCGTGTTCTCAACCTGATGA
                           gattaac  putative branch site (score: 2)
                            attaacat  TA-rich tract