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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctatattgacactgtagaatagagatgctacaactttatttaatccaatccttctcttccctggttcaagtgttcattgaaatattacgcttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTCATTAAGACATGGGTGCAATGATATACTTAAG

Basic information

species Oryza sativa
transcript LOC_Os04g11880.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g11880.1 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 17
----------------------------------------------------------gctatattgacactgtagaatagagatg--ctacaactttatttaatccaatccttctcttccctggttcaagtgttcattgaaatattacgcttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTCATTAAGACATGGGTGCAATGATATACTTAAG
                                                          |  |  ||| ||   || | | || | |  || | |   |  ||||||||| | ||   | ||||||||  |||||||| |        | ||||||||||||||||||||||| ||||||||||||||||| || || || ||||||||||||||  || |||| ||||| ||||||||||||
gtatgttccatcaaaatttatcgtaaaataactgagctacagaatttcttgcatgactgaaaccttggcaa-atatactcgaaacgatctgccatgattcttaatccaaccatttcatcccctggtt-gagtgttcact-------catgcttttgatagGTTGCGGGATCGTCTTGTGAAAATTGTGACGGATTACCGGACAGAAACTTCATTGCGAAATGGATGCAACGATATACTTAAG
















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|55409184|gb|CV721560.1|CV721560
EST:     GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAG                         GTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
genomic: GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAGgtaaatgtgc ... cttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
EST: gi|218488547|gb|FG955820.1|FG955820
EST:     GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAG                         GTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
genomic: GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAGgtaaatgtgc ... cttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
EST: gi|58688189|gb|CK076876.1|CK076876
EST:     GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAG                         GTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
genomic: GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAGgtaaatgtgc ... cttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
EST: gi|58692342|gb|CK081029.1|CK081029
EST:     GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAG                         GTTGCGGGATCGCCTTGTGAAAATTGTGACAGAC
genomic: GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAGgtaaatgtgc ... cttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGAC
EST: gi|218492660|gb|FG966164.1|FG966164
EST:     GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAG                         GTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC
genomic: GATCCTTTGTACATTGTTAGTTTGGTTCCTGATGGGCTAGAAATACCAAGgtaaatgtgc ... cttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatccttctcttccctggttcaagtgttcattgaaatattacgcttttgatagGTTGCGGGATCGCCTTGTGAAAATTGTGACAGACTATCGAACAGAAACTTCATTAAGACATGGGTGCAATGATATACTTAAG
                                           cgctttt  CT-rich tract
                            ttcattgaaatatta  TA-rich tract