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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgaagtttattgaatcatgtttatactttatattttttttccaagcctagtgatcttattgttacttgcattcacagTTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAGCCTGGAGTATTTTTCTTCTATGATTTCTCACCCATAAAG

Basic information

species Oryza sativa
transcript LOC_Os05g41120.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g41120.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G044457_T02 (Zea mays), 3'ss of exon 7
gttagtgaagtttattgaatcatgtttat-actttatattttttttccaagcctagtgatcttattgttacttgcattcacagTTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAGCCTGGAGTATTTTTCTTCTATGATTTCTCACCCATAAAG
||| ||| |  | ||||  | ||||| ||   ||||||||   |   |||   || | ||| | ||||||||| ||||  |||||||| ||||| || |||||||| ||||| ||| |||| || |||||||| |||||||| ||||||||||||||||||||||| ||||||
gttcgtggaact-attgt-ttatgttcattgttttatattccct---caacattaat-atccttttgttactttcatttccagTTCTCGGTAACGGAACATTTTAGGGATGGAAATGTTCGTCCGAAACCCCAACCTGGAGTTTTTTTCTTCTATGATTTCTCACCTATAAAG

upper sequence: LOC_Os05g41120.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G161019_T03 (Zea mays), 3'ss of exon 10
gttagtgaagtttattgaatcatgtttatactttatattttttttccaagcctagtgatcttattgttacttgcattcacagTTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAGCCTGGAGTATTTTTCTTCTATGATTTCTCACCCATAAAG
||| ||| |  | ||||||| ||||  | || || ||| ||   || ||   || | ||||   |||||||| ||||  |||||||| ||||| || |||||||||||||| ||| |||| || ||| |||| |||||||||||||||||||||||||||||||| ||||||
gtttgtggaact-attgaat-atgtgca-acgttttatattccctc-aacattaat-atctgtatgttactttcatttccagTTCTCGGTAACGGAACATTTTAGAGATGGAAATGTTCGTCCGAAATCCCAACCTGGAGTATTTTTCTTCTATGATTTCTCACCTATAAAG
















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|29642620|gb|CB647627.1|CB647627
EST:     TTCCTACAATTTACACTGATCTAAGAGGGCGCAAGATTCATTCCAACCAA                         TTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAG
genomic: TTCCTACAATTTACACTGATCTAAGAGGGCGCAAGATTCATTCCAACCAAgttagtgaag ... gcattcacagTTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactttatattttttttccaagcctagtgatcttattgttacttgcattcacagTTCTCAGTAACAGAGCATTTTAGAGATGGGAATATTCGCCCCAAACCCCAGCCTGGAGTATTTTTCTTCTATGATTTCTCACCCATAAAG
     ttatattttttttcca  TA-rich tract