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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatttcactcaagctgtaatttccagaaatttattttcagtgtttactactcagcttgaactaaaccgttactaacgaaaatgatgaaagtgcagGATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGCATGTGGTTGAGTGTAGCTGTCATGATCTAATGACTTCATCAGATAGCGG

Basic information

species Oryza sativa
transcript LOC_Os04g52690.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52690.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G445617_T02 (Zea mays), 3'ss of exon 4
gttatttcactcaagctgtaatttccagaaatttattttcagtgtttactactcagcttgaactaaaccgttactaacgaaaa-tgatgaaagtgcagGATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGCATGTGGTTGAGTGTAGCTGTCATGATCTAATGACTTCATCAGATAGCGG
|||| | ||||  | || | | |||  ||||| | | |||      ||||||||| | |  |  | | |   |||  | ||||  |||     || ||||||||| ||||| || || || | ||||||||| |||||| ||||| |||||||||| |||||||||||||||||||| ||||| |||||||| || ||
gttagtgcacttcaactatgacttcatgaaatgtgtattcc---catactactcaaccttcaacagaactcgactctcaaaaaacgatcgctttgtagGATGTGGAAAGCGCACAGTGGTTAGGCATGTTGCTAACCATCTTGGTCTGCATGTGGTCGAGTGTAGCTGTCATGATCTGATGACATCATCAGAAAGTGG
















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|29667675|gb|CB663950.1|CB663950
EST:     AAACATTTTGCCAAAAGTCAAGTTTTCCACTTTCTTATACGGGCCTTCAG                         GATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGC
genomic: AAACATTTTGCCAAAAGTCAAGTTTTCCACTTTCTTATACGGGCCTTCAGgttatttcac ... gaaagtgcagGATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGC
EST: gi|86884042|gb|CI311568.1|CI311568
EST:     AAACATTTTGCCAAAAGTCAAGTTTTCCACTTTCTTATACGGGCCTTCAG                         GATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGC
genomic: AAACATTTTGCCAAAAGTCAAGTTTTCCACTTTCTTATACGGGCCTTCAGgttatttcac ... gaaagtgcagGATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttactactcagcttgaactaaaccgttactaacgaaaatgatgaaagtgcagGATGTGGGAAGCGGACGGTAGTCAAGCATGTTGCCAACCATTTTGGTTTGCATGTGGTTGAGTGTAGCTGTCATGATCTAATGACTTCATCAGATAGCGG
                             tactaac  putative branch site (score: 0)
                                     aaaatgat  TA-rich tract