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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgcgtgcatcaaattatttacatggatgaaatgtctttat...

Basic information

species Oryza sativa
transcript LOC_Os01g55890.6
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55890.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G424873_T04 (Zea mays), 5'ss of exon 6
----------------------GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgc-gtgcatcaaattatttacatgga--tgaaatgtctttat
                      ||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||| || | ||||| | ||||| |      |  |   ||||| ||||  |||  |||||||   || ||  | ||  ||| |    |  ||  ||||    | 
GATCTTATCTTTAAATGACCAGGACTGTACCATATTGAGTGGGGATGTCATTATACGACATCTTGCACAGCTTCTGAGTCCGAAATATGTAGTATTTCTGgtactgttaccttccctcctttacagct-ttaaaagttttatgttatcgatggaagatggttttgtacactatatggttttctaaaaattgtgatgtagacag

upper sequence: LOC_Os01g55890.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G424873_T06 (Zea mays), 5'ss of exon 7
GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgc-gtgcatcaaattatttacatgga--tgaaatgtctttat
||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||| || | ||||| | ||||| |      |  |   ||||| ||||  |||  |||||||   || ||  | ||  ||| |    |  ||  ||||    | 
GACTGTACCATATTGAGTGGGGATGTCATTATACGACATCTTGCACAGCTTCTGAGTCCGAAATATGTAGTATTTCTGgtactgttaccttccctcctttacagct-ttaaaagttttatgttatcgatggaagatggttttgtacactatatggttttctaaaaattgtgatgtagacag

upper sequence: LOC_Os01g55890.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G424873_T05 (Zea mays), 5'ss of exon 7
----------------------GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgc-gtgcatcaaattatttacatgga--tgaaatgtctttat
                      ||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||| || | ||||| | ||||| |      |  |   ||||| ||||  |||  |||||||   || ||  | ||  ||| |    |  ||  ||||      
GATCTTATCTTTAAATGACCAGGACTGTACCATATTGAGTGGGGATGTCATTATACGACATCTTGCACAGCTTCTGAGTCCGAAATATGTAGTATTTCTGgtactgttaccttccctcctttacagct-ttaaaagttttatgttatcgatggaagatggttttgtacactatatggttttctaaaaattgtgatgtagac--

upper sequence: LOC_Os01g55890.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G052816_T01 (Zea mays), 5'ss of exon 2
GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgcgtgcatcaaattatttacatggatgaaatgtctttat----
||||| |||||  ||||||| |||||||| |||    |||||||||||||| | |||||||||||||||||||| ||||||||| | ||||  | ||||| |      |  |   ||| | ||||  |||  |||||||   || |    || | |   ||   | || ||  | ||     
GACTGTACCATACTGAGTGGAGATGTCATCATAACAAATCTTGCACAGCTTTTAAGTCCAAAATATGTTGTATT-CTGGtattgttacctttcctcctttacagct-ttaaaagttttctgttatcaatggaagatggttt-tgtacactatcact-gtattctttaattgcttgtaccgtc

upper sequence: LOC_Os01g55890.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G424873_T07 (Zea mays), 5'ss of exon 8
GACTGCACCATTTTGAGTGGGGATGTCATTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgccttctcacctttgccatgacttgacaatttatattatgtatgtgagatggtgc-gtgcatcaaattatttacatgga--tgaaatgtctttat
||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||| || | ||||| | ||||| |      |  |   ||||| ||||  |||  |||||||   || ||  | ||  ||| |    |  ||  ||||      
GACTGTACCATATTGAGTGGGGATGTCATTATACGACATCTTGCACAGCTTCTGAGTCCGAAATATGTAGTATTTCTGgtactgttaccttccctcctttacagct-ttaaaagttttatgttatcgatggaagatggttttgtacactatatggttttctaaaaattgtgatgtag----

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|87019242|gb|CI279752.1|CI279752
EST:     TTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTG                         ACAGATGTCCATGGAGTATTTGATCGTCCTCCATCAGACCCGAATGCAGTA
genomic: TTATACGCCATCTTGCACAGCTTCTGAGTCCAAAATATGTTGTATTTCTGgtattgctgc ... tgagatgtagACAGATGTCCATGGAGTATTTGATCGTCCTCCATCAGACCCGAATGCAGTA