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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctcaaatgaagttgtggtttagaaagtacatcagcttttctggtgtctgtgtgctaagtggttattgtttgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTCGATGTCTAATCTTAAGTATTT

Basic information

species Oryza sativa
transcript LOC_Os03g08550.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g08550.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G153393_T01 (Zea mays), 3'ss of exon 4
gtaagttcctcaaatgaagttgtg-gtttagaaagtacatcagcttttctggtgtc-tgtgtgctaagtggttattgtt-tgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTCGATGTCTAATCTTAAGTATTT
||||||||||  | | ||  ||||  |||  ||| | |   | || || ||||| | ||  || ||  || || ||| | | ||||||||| |||||||| || ||   |||||||||||||||||| ||||   ||||| ||||||||||||||||
gtaagttcctacagtcaatctgtgcatttgaaaatttctctaactattatggtggcatggctgttagatgattcttgctgtacagCAATCTTGCAGGAAATCAATTTGGTGGAAATTTACCCTACTCAATTTCGACGATGCCTAATCTTAAGTATTT

upper sequence: LOC_Os03g08550.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G330907_T01 (Zea mays), 3'ss of exon 4
gtaagttcctcaaatgaagttgtg-gtttagaaagtacatcagcttttctggtgtc-tgtgtgctaagtggttattgtt-tgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTCGATGTCTAATCTTAAGTATTT
|||||||| |  | |||| |||||  |||  |   | ||  | ||  |||| || | |   || ||  || || || || | ||||||||| |||||||| || ||   |||||||||||||||||| ||||   ||||| ||||||||||||||||
gtaagttcatacagtgaatttgtgcatttgaatttttcactaactaatctgatggcatagctgttagatgattcttcttgtacagCAATCTTGCAGGAAATCAATTTGGTGGAAATTTACCCTACTCAATTTCGACGATGCCTAATCTTAAGTATTT
















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|3107717|gb|D43457.1|D43457
EST:     GGTGGCCAACAGATACAGTACAATCTTCCCACTAATAAGCTTGAGAGGCT                         CAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTC
genomic: GGTGGCCAACAGATACAGTACAATCTTCCCACTAATAAGCTTGAGAGGCTgtaagttcct ... ttgtttgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTC
EST: gi|88386689|gb|CI682838.1|CI682838
EST:     GGTGGCCAACAGATACAGTACAATC-TCCCACTAATAAGCTTGAGAGGCT                         CAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTC
genomic: GGTGGCCAACAGATACAGTACAATCTTCCCACTAATAAGCTTGAGAGGCTgtaagttcct ... ttgtttgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaaagtacatcagcttttctggtgtctgtgtgctaagtggttattgtttgcagCAATCTCGCAGGAAACCAGTTCACTGGAAATTTACCCTACTCGATTTTCTCGATGTCTAATCTTAAGTATTT
                                          ttattgttt  TA-rich tract