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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaatgccttctttattttagtatatttgtttttctctgttaaaatgatgattattgtataaaggtgaaacagatgtatggttaagttgcatttcttactgagcttatgtaatacttaaactggaataatctatcaggatcatgatcgggcttactttgattctgctgattgggctctagGCAAG

Basic information

species Oryza sativa
transcript LOC_Os01g47490.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47490.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA02G12170.1 (Glycine max), 3'ss of exon 3
gtcaatgccttctttattttagtatatttgtttttctctgttaaaatgatgattattgtataaaggtgaaacagatgtatggttaagttgcatttcttactgagcttatgtaatacttaaactggaataatctatcaggatcatgatcgggcttactttgattctgctgattgggctctagGCAAG
     |  |||  |||| |||    |    |  | |    | ||  |     ||  |   |       || ||  |||||  ||  || | || |  |  |||   |   |  |  | |        |  | |  ||||||||||| || ||||||||||| ||||||||||||||| | || |||
----gttactttcttatctta----accgatcctgcgtcatcaatgtttctcttcct-cctgtcatccaatcatctgtatatttctgtggaatgttcttttgaaactgatttttcttcatgaacatttttttttgcagGATCATGAACGTGCTTACTTTGACTCTGCTGATTGGGCTTTGGGGAAG

upper sequence: LOC_Os01g47490.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA01G06080.1 (Glycine max), 3'ss of exon 3
gtcaatgccttctttattttagtatatttgtttttctctgttaaaatgatgattattgtataaaggtgaaacagatgtatggttaagttgcatttcttactgagcttatgtaatacttaaactggaataatctat--caggatcatgatcgggcttactttgattctgctgattgggctctagGCAAG
     |  |||  |||| ||||   ||      | ||   | ||  |     ||   |  |       || ||  ||||   ||  ||   || |  |  |||   |   |  | ||| |     | |  | |||  ||||||||||| || ||||||||||| ||||||||||||||| | || |||
----gttactttcttatcttagccgatcc----tgcttcatcaatgtttctcttccagc-tgtcatccaatcatctgtacatttgggtgaaatgttcttttgaaactg-atttttcttcatgaacattcttttattgcagGATCATGAACGTGCTTACTTTGACTCTGCTGATTGGGCTTTGGGGAAG
















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|8527741|gb|AU092556.1|AU092556
EST:     AGAAAAAATATGGTGGAATACTGCCCAAGAGGACGCCACATATAACTAAG                         GCAAG
genomic: AGAAAAAATATGGTGGAATACTGCCCAAGAGGACGCCACATATAACTAAGgtcaatgcct ... tgggctctagGCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatctatcaggatcatgatcgggcttactttgattctgctgattgggctctagGCAAG
                                      tgctgat  putative branch site (score: 3)
                          ttacttt  TA-rich tract