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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGGGCAGGGTTTACACACAAAGGTAGCCCAAGTTGCGGCTTCATCATTCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttggcatatggacttgctacatttgatttgcatggtctatcaatgtattcaatgaagatgttattcttatatgttactactttatttccaatgatgggttaatcagtaatcacacatgtgctcatctcaatacttag

Basic information

species Oryza sativa
transcript LOC_Os03g31550.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g31550.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G050984_T01 (Zea mays), 5'ss of exon 6
AATGGGGCAGGGTTTACACACAAAGGTAGCCCAAGTTGCGGCTTCATCATTCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttggcatatggacttgctacatttgatttgcatggtctatcaatgtattcaatgaagatgttattcttatatgttactactttatttccaatgatgggttaat-cagtaatcacacatgtgctcatctcaatacttag
 ||||| |||||||| ||||||||||||||||||||||| || || |||||||||||||||||||||||| ||||||| ||||| ||||| |||||||||||||| |  | || |||||  | |  | | ||     |||| | | |      | |   ||       || | || |   |||||  |||||||  || | || |  ||| || | |    |   |    |||||      ||||
GATGGGACAGGGTTTGCACACAAAGGTAGCCCAAGTTGCTGCCTCGTCATTCAATATCCCTCTTAGCTCTGTATTTATATCAGAGACAAGTACTGATAAGgtgaggtccgacacatggatgtaccccttctg-----catgattttt----acactagttg-------tactttttttcattact--tttatttataa-gttgtgccaatacaatgaggtgatgggattccatct----gtttag

upper sequence: LOC_Os03g31550.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA13G41520.1 (Glycine max), 5'ss of exon 11
AATGGGGCAGGGTTTACACACAAAGGTAGCCCAAGTTGCGGCTTCATCATTCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttggcatatggacttgctacatttgatttgcatggtctatcaatgtattcaatgaagatgttattcttatatgttactactttatttccaatgatgggttaatcagtaatcacacatgtgctcatctcaatacttag
||||||||| ||||| || || || || |||||| |||| |||||| | ||| ||||||||||||| ||| | ||||| ||||| || || ||||| |||||    ||| |    |  ||||  |||    | |||   | || |       |||||   |||    ||| ||| |  | |  |  |   | || | |   |   | | | | | || |                         
AATGGGGCAAGGTTTGCATACCAAAGTTGCCCAAATTGCTGCTTCAGCTTTCCATATCCCTCTTAGTTCTGTCTTTATATCAGATACTAGTACTGACAAGgta---tttagt---tacactttttacg---ggtttatgttgtttt------tattcttggaaa---ttagtctcagctatatcatccaaacttacca-agtaaataagtaatttatta-------------------------
















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|58682426|gb|CK071113.1|CK071113
EST:     TCAATATCCCTCTTAGCTCTGTATTTATCTCAGAAACAAGCACTGATAAG                         GTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT
genomic: TCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttg ... caatacttagGTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT
EST: gi|218495632|gb|FG967039.1|FG967039
EST:     TCAATATCCCTCTTAGCTCTGTATTTATCTCAGAAACAAGCACTGATAAG                         GTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT
genomic: TCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttg ... caatacttagGTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT
EST: gi|29675056|gb|CB671331.1|CB671331
EST:     TCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAG                         GTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT
genomic: TCAATATCCCTCTTAGCTCTATATTTATCTCAGAAACAAGCACTGATAAGgtgagttttg ... caatacttagGTACCAAATGCAACACCAACAGCAGCCTCTGCTAGTTCAGATTTATATGGT