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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttatgttcaaatgattcatctttccttcctccacaggagcaatcctgaatttgacctgttggaatgacattactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG

Basic information

species Oryza sativa
transcript LOC_Os09g24650.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g24650.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G113619_T04 (Zea mays), 3'ss of exon 5
gtgaatttatgttcaaatgattcatctttccttcc---tccacaggagcaatcctgaatttgacctgttggaatgaca-ttactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG
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gtgattttgagttatgagcaaagaactgttatgccaatttcacaatgacagttaatactaaattttgttgaaaaaaaactttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAG
















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|38471428|gb|CF955559.1|CF955559
EST:     GTGAAATTTGTCATGAG                         CCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACT
genomic: GTGAAATTTGTCATGAGgtgaatttat ... attactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACT
EST: gi|29626392|gb|CB631403.1|CB631403
EST:     AACGATGGTGCAATGAGAAAGGAGATGTAACGTGTGAAATTTGTCATGAG                         CCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACT
genomic: AACGATGGTGCAATGAGAAAGGAGATGTAACGTGTGAAATTTGTCATGAGgtgaatttat ... attactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcctccacaggagcaatcctgaatttgacctgttggaatgacattactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG
                         atttgac  putative branch site (score: 4)
                      tgaattt  TA-rich tract