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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgaatgaatctaaatgtggacattttggtttgttcatcgatgtttatgattccaaatgttcgttcactcgttgatctgttgctgtctgtattgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCC

Basic information

species Oryza sativa
transcript LOC_Os02g04030.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g04030.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G171349_T02 (Zea mays), 3'ss of exon 3
ctgaatgaatctaaatgtggacattttggtttgttcatcgatgtttatgattccaaatgttcgtt-cactcgttga--tctgttgc-tgtctgtattgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCC
  | |  |  ||  ||||   | | || | | || ||  ||   || |   |||||      |   ||   |  |   |||| | | ||   |   || ||||||| |||||||||||||||||||||||||| || ||||| ||||||||||||||||||||||||||||| ||||| || ||||||||||| ||||||||||
--gtaccacactgcatgt---cctgttcgatcgtccagtga-acttgttcgtccaagcaactgcaacaagtgcagccttctgctacatgctcgccctg-tgcagACGCTGTGCCGGATGTTCATCATCAACGCGGGGCAAGGGTTCAGGCTTCTCTGGAACACCGTCAAGTCGTTCCTGGACCCCAAGACCACGGCCAAGATCC

upper sequence: LOC_Os02g04030.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
ctgaatgaatctaaatgtggacattttggtttgttcatcgatgtttatgattccaaatgttcgttcactcgttgatctgttgctgtctgtattgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCC
     |    |   || |   |   | ||  ||   | |  | |  |||    |  |  ||    |  |  |||| || || || |||  |      ||| | |||  ||| |||||||||||||| || |||   ||||| |||||  | ||||||||| | ||||| ||||| ||||||||||||||  | || ||||
----gtactgccttattttatctactaggcatggaaa-cactttgaatggcctcctaaatttaccc--taattgaactttt-ctttctaca------cagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
















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|66932181|gb|CX119029.1|CX119029
EST:     GGGATCTCATCGGCCGCCTCCAGAAGGTCGATGGTGACAACTACCCAGAG                         ACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTC
genomic: GGGATCTCATCGGCCGCCTCCAGAAGGTCGATGGTGACAACTACCCAGAGgtagctagca ... attgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgattccaaatgttcgttcactcgttgatctgttgctgtctgtattgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCC
                                            tattgat  putative branch site (score: 3)
         aaatgtt  TA-rich tract