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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaccagtttctcgtgttaccgtggtttcttatgtctaccaagtgccaaccactggattgttgcagattcagcctatttatgttcgtggactgtccattttcttctgacctccaattctgaatttatcttaatttgatgtacagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA

Basic information

species Oryza sativa
transcript LOC_Os07g22720.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G161969_T01 (Zea mays), 3'ss of exon 8
gtaattaccagtttctcgtgttaccgtggtttcttatgtctaccaag--tgccaaccactggattgttgcagattcagcctatttatgttcgtggactgtccattttct-tctgacctccaattctgaatttatc-ttaatttgatgta--cagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA
|||||| |   ||   | | ||    ||||    |||||  ||  ||  |       | ||| ||  ||||  ||  |  ||||| |     | | || |  |||| || ||||   | || |  ||||| | || || ||||||| ||  |||||||||||| |||||||| ||||||||||||||||||| ||||| ||||||||||||||||| |||||
gtaattgcggattctcccttttggtttggtaatctatgtgcacttaggtttgtggatattgggtttgtgcactttttgt-tatttgtacatatagtctattaatttcctctctgctgtgcattattgaatctgtcgtttatttgatatatgcagGCTGCAGCTTTGGCTCTTAGAAAGGTCCCTCAGTGTAACAGCTCATGGATGAATGATTTTATTCGCCA

upper sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G015132_T01 (Zea mays), 3'ss of exon 12
gtaattaccagtttctcgtgttaccgtggtttcttatgtctaccaagtgccaaccactggattgttgcagattcagcctatttatgttcgtggactgtccattttct-tctgacctccaattctgaatttatcttaatttgatgtacagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA
||||||    |||   | | |     ||||||  ||| ||||    |  |  |     || |||||   |        ||||| |  |  |   || |   ||| || ||||   | || |  ||||| | ||||  |||| | | |||||||||||| |||| ||||||||||||||||||||||| ||||| ||||||||||||||||| || ||
gtaattgttggttctcccttt-----tggtttggtat-tctattgtgcactta-----ggtttgtttttg-------ttatttgtactgatattctattagtttcctctctgctgtgcagtattgaatatgtctttgtttggtatgcagGCTGCAGCTTTGGCCCTTCGAAAGGTCCCTCAGTGTAACAGCTCATGGATGAATGATTTTATTCGGCA
















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|58680453|gb|CK069140.1|CK069140
EST:     AGGAGTCCTCCGGTGGTAAGAAGATATCTATTAATGATCTAGTTATAAAG                         GCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATG
genomic: AGGAGTCCTCCGGTGGTAAGAAGATATCTATTAATGATCTAGTTATAAAGgtaattacca ... tgatgtacagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATG
EST: gi|55410697|gb|CV723073.1|CV723073
EST:     AGGAGTCCTCCGGTGGTAAGAAGATATCTATTAATGATCTAGTTATAAAG                         GCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATG
genomic: AGGAGTCCTCCGGTGGTAAGAAGATATCTATTAATGATCTAGTTATAAAGgtaattacca ... tgatgtacagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtccattttcttctgacctccaattctgaatttatcttaatttgatgtacagGCTGCAGCTCTGGCTCTTCGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA
                        aattctgaatttatct  TA-rich tract