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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttctttgctcccttagtattttctttgcaattctttgatttttttttcttgttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGAAATTACATAACAAG

Basic information

species Oryza sativa
transcript LOC_Os01g53600.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g53600.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G158562_T03 (Zea mays), 3'ss of exon 5
gtgagtttctttgctcccttagtattttctttgcaattctttgatttttttttcttgttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGAAATTACATAACAAG
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gtgagtttcttttggtcctttgcaatttttctgcagttacttgatattttctgatgttgactttagGTTGCCAGCCTTGTGAATATTCTTGATTTTAAACTGGCAAAAGGTGTAGGCGACTACATAGCAAG
















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|29674660|gb|CB670935.1|CB670935
EST:     TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCG                         GTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
genomic: TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCGgtgagtttct ... gttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
EST: gi|218480035|gb|FG968183.1|FG968183
EST:     TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCG                         GTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
genomic: TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCGgtgagtttct ... gttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
EST: gi|29674619|gb|CB670894.1|CB670894
EST:     TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCG                         GTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
genomic: TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCGgtgagtttct ... gttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGA
EST: gi|29673186|gb|CB669461.1|CB669461
EST:     TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCG                         GTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAACCAAAGGGGTTG
genomic: TGCATGATGGTGGTGAAATAGATGTTCGTGCTAGCTATACTGCAATATCGgtgagtttct ... gttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctcccttagtattttctttgcaattctttgatttttttttcttgttttgttagGTTGCCAGCCTTGTGAACATTCTTGATGGTGAACTAGCAAAAGGTGTTGGAAATTACATAACAAG
                           ctttgat  putative branch site (score: 5)
                         ttctttgatttttttt  CT-rich tract
                       aattctttgatttttt  TA-rich tract