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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgctttttatcacttgtaattgagaaagaaacttctttcttgaacttgtgtgtggcatttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATTGGATTTCCAAAG

Basic information

species Oryza sativa
transcript LOC_Os03g18310.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18310.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 15
gtaagtatgctttttatcacttgtaattgagaaagaaacttctttcttgaacttgtgtgtggcatttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATTGGATTTCCAAAG
||||||||||  |||    ||  || |     |||        |  || || || ||||   |  |   ||||||||||||||||||||||||||||  ||||||||||||| || || |||||||| |||||||||
gtaagtatgccatttgcttctc-tattcagtgaaggggaaatatcattaaatttatgtgcaacgatgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATTGGTTTTCCAAAG
















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|29643803|gb|CB648810.1|CB648810
EST:     AACTTGCCAGCTTTATAGAAAAGCGGCTAGCGTCTGAGAGAACTGCATCT                         ATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATT
genomic: AACTTGCCAGCTTTATAGAAAAGCGGCTAGCGTCTGAGAGAACTGCATCTgtaagtatgc ... tttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATT
EST: gi|88431147|gb|CI574318.1|CI574318
EST:     AACTTGCCAGCTTTATAGAACAGCGGCTAGCGTCTGAGAGAACTGCATCT                         ATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATT
genomic: AACTTGCCAGCTTTATAGAAAAGCGGCTAGCGTCTGAGAGAACTGCATCTgtaagtatgc ... tttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtaattgagaaagaaacttctttcttgaacttgtgtgtggcatttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATTGGATTTCCAAAG
                                            atttgat  putative branch site (score: 5)
                                            atttgatt  TA-rich tract