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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactattttattcccatttttatcaacttttaactaatcaaatctattctgagcctgtaaatctttgtggttttattctgacaatttactgtgcatgtatatcagccagtcacattcaagccatgtggttatagcaatactaatagctcatctttcctttcacagGAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACTGGGTACCTCTTGTTCCTG

Basic information

species Oryza sativa
transcript LOC_Os02g02750.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g02750.4 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G466281_T02 (Zea mays), 3'ss of exon 8
gtactattttattcccatttttatcaactttta-actaatcaaatctattctgagcctgtaaatctttgtggttttattctgacaatttactgtgcatgtat--atcagccagtcac------attcaagccatgtggttatagcaatactaatagctcatctttcctttcacagGAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACTGGGTACCTCTTGTTCCTG
|||| ||||  ||   ||   | |||| || ||   | || |  |   |  ||| | |  ||    |   ||| ||  ||||  |||| ||||||||| |||  || || |  | ||       |  || ||||||||||   |   || | ||||||||||||||||||   |||||| || ||||||||||| ||||| | ||||||||| ||||| ||    ||||| |||||| |  |||
gtacaatttgttttgaat---tgtcaatttatatgtttataaggttcctgttgaacttcaaa----taaaggtgttcctctgctaattcactgtgcatatatgtatgaggcctttactcaaaagtcaaaaccatgtggttt--gtggtatttatagctcatctttccttt-gtagGAGCCGAGTGGTGGGCACAGGATTTTCAGAAGTCAATGCCCCTGCTGGGTTGGGTTCCTCTTATCTCTG
















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|2431249|gb|C73669.1|C73669
EST:     TGAAGGCCTTATGCTAATCTATTTGTGCCATTTTTTCACCTTCTTCACAG                         GAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACT
genomic: TGAAGGCCTTATGCTAATCTATTTGTGCCATTTTTTCACCTTCTTCACAGgtactatttt ... cctttcacagGAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACT
EST: gi|33803550|gb|CF327650.1|CF327650
EST:     ATGCTAATCTATTTGTGCCATTTTTTCACCTTCTTCACAG                         GAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACT
genomic: ATGCTAATCTATTTGTGCCATTTTTTCACCTTCTTCACAGgtactatttt ... cctttcacagGAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacattcaagccatgtggttatagcaatactaatagctcatctttcctttcacagGAGCTGAATGGTGGGCACAAGATTTCCGGAAGTCAATACCCCTACTAAACTGGGTACCTCTTGTTCCTG
                           tactaat  putative branch site (score: 1)
                                    ctcatctttcctttca  putative PPT
                         aatactaata  TA-rich tract