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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttgataatctcatgcgattcatttacatgctatgactttgcttcattggtgccttacaaatcttccttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACGTTAGGGAAGTATGATCCACGTCCTGTTCAACCTGATTCTCTCTTTCCAG

Basic information

species Oryza sativa
transcript LOC_Os06g48770.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 15
---gtaggttgataatctcatgcgattcatttacat--gctatgactttgcttca---ttggtgcct-----tacaa-------atcttccttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACGTTAGGGAAGTATGATCCACGTCCTGTTCAACCTGATTCTCTCTTTCCAG
   | ||  |  |||     |  ||||||  |||    ||    | | ||    |   || ||   |     || ||       || |   |||  | |||| || || ||||||||||||||||||||||||||||| |||||||||| | | |||||||||||||| || |||||||||||||||||||| ||||| |
gtaggagtctcctaagaatctatgattcaactacgctggcagcaattctgtacaaaatttagtatttgtgtgtataacacttacatttgtttttccctagGTCTGCGCATATAAAGATGGAAAGGTCATAATAGATACTGCTGCTGGTATGCTGGGGAAGTATGATCCCCGACCTGTTCAACCTGATTCTCTTTTTCCTG
















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|58606319|gb|CK034352.1|CK034352
EST:     GCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAACATTTTAGGAATACAA                         GTTTGTGCTTATACAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
genomic: GCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAA-ATTTTAGGAATACAAgtaggttgat ... cttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
EST: gi|29679895|gb|CB676170.1|CB676170
EST:     TGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAA                         GTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
genomic: TGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAAgtaggttgat ... cttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
EST: gi|58590136|gb|CF988444.1|CF988444
EST:     TGCGGAACCTTCTGGTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAA                         GTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
genomic: TGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAAgtaggttgat ... cttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
EST: gi|87005733|gb|CI316152.1|CI316152
EST:     TGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAA                         GTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG
genomic: TGCGGAACCTTCTGCTTGAGTTGGGAAGCAACAAAATTTTAGGAATACAAgtaggttgat ... cttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttacatgctatgactttgcttcattggtgccttacaaatcttccttttaccagGTTTGTGCTTATAAAGATGGAAAGGTCATAATAGATACCGCTGCTGGTACGTTAGGGAAGTATGATCCACGTCCTGTTCAACCTGATTCTCTCTTTCCAG
                              gccttac  putative branch site (score: 3)
                                        tcttccttttacc  putative PPT
                                 ttacaaat  TA-rich tract