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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag

Basic information

species Oryza sativa
transcript LOC_Os07g07560.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G508368_T01 (Zea mays), 5'ss of exon 2
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
|||| || ||||| |||      || || |||||||||||||| ||| |||| ||||||||||||||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    |  ||| ||||     
CATCCAAGTGGAGAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCCGATATCTTTAGgttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttcgttaacctatcctataatttctttttgcag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 9
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
|||| || ||||| |||      || || |||||||||||||| ||| |||||||||||||||||||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    | |||| ||||     
CATCCAAGTGGAGAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttccttaacctatcctcttgtttctttttgcag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 4
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
|||| || ||||| |||      ||  | |||||||||||||| ||| |||||||||||||||||||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    | |||| ||||     
CATCCAAGTGGAGAGAGAATAATGGTTATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttccttaacctatcctcttgtttctttttgcag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G082099_T01 (Zea mays), 5'ss of exon 3
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
|||| || ||||| |||      || || |||||||||||||| ||| |||||||||||||||||||||  ||||||||    || |||| | ||  |  | ||| | || | ||   | |  | | |  | |||| ||||  |  
CATCCAAGTGGAGAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttatattctcat--tagctgc-agcttccattaata-aatggtcttccttaacctatcttcttgtttctttttggag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G458035_T01 (Zea mays), 5'ss of exon 7
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
|||| || ||||| |||      || || |||||||||||||| ||| |||||||||||||||||||||  ||||||||    || ||| || ||  |  | ||| | || | ||   | |  | | |  | |||| ||||     
CATCCAAGTGGAGAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttatattctcat--tagctg-tagcttccattaata-aatggtcttccttaacctatcttcttgtttctttttgcag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 9
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag
|||| || ||||  |||      || || |||||||||||||| ||| |||||||||||||||||||||  ||||||||   | | | | | |   | |   | || | | | | ||     |  | |     | ||||| |||
CATCCAAGTGGAAAGAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggtcatattctcatagcagcagttttt--tttaataaatggcgttctgtaacctatcctcttggtttctttttgcag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G017204_T01 (Zea mays), 5'ss of exon 1
CATCGAAATGGAGGGAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcag--
          ||| || | ||  || || |||||||||||||| ||| |||||||||||||||||||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    | |||| ||||     
----------GAGAGAATAAT--GGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttcgttaacctatcctcttgtttctttttgcag

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|58659496|gb|CK048176.1|CK048176
EST:     GAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAG                         GGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAG
genomic: GAGTCATCAGGGCAACATGTTGATTATGACCAAAGGCCTGATATCTTTAGgttggcaata ... tttttttcagGGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAG