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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgattttgcttcagcttatatttgttgtctaactaatttccatttgttttttatggatatatacctttactaagtgggtaataaatgctttctttcgttttttatggatatatacctttactaagtgggtaataaatgctttctttccagGCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAA

Basic information

species Oryza sativa
transcript LOC_Os01g73530.2
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 23
lower sequence: GRMZM2G074241_T01 (Zea mays), 3'ss of exon 6
gtcagtgattttgcttcagcttatatttgttgtctaactaatttccatttgttttttatggatatatacctttactaagtgggtaataaatgctttctttcgttttttatggatatatacctttactaagtgggtaataaatgctttctttccagGCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAA
                                                      |   ||  ||   |    || || ||   || |   |    |       ||  | |   | ||   || | ||||||||| |  |  |||||||||| ||||||||| ||||||| |||||||| || | ||| ||||| ||||||||||||||
-----------------------------------------------------gtcagtgattaataaggcctattatgtatttactggcttacctaaacaaattgatctctctctacctctgtgctaagtggg-aggacctgctttcttttcagGCTCGTCTGTTCTTTCACTGTCCCAAGTATGGCATCCTCGACGAGTGCACCAA
















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|29645989|gb|CB650996.1|CB650996
EST:     CTAACTGGGAAGATATTCTATCCTTGGGAGAACAGCAGAGGCTAGGCATG                         GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACC
genomic: CTAACTGGGAAGATATTCTATCCTTGGGAGAACAGCAGAGGCTAGGCATGgtcagtgatt ... ttctttccagGCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACC
EST: gi|33684550|gb|CF312789.1|CF312789
EST:     TAACTGGGAAGATATTCTATCCTTGGGAGAACAGCAGAGGGCTAGGCATG                         GCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACC
genomic: TAACTGGGAAGATATTCTATCCTTGGGAGAACAGCAGAGG-CTAGGCATGgtcagtgatt ... ttctttccagGCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttttttatggatatatacctttactaagtgggtaataaatgctttctttccagGCTCGTTTGTTCTTCCACTGTCCAAAATTTGGTATCCTAGACGAGTGCACCAA
                                         tgctttctttcc  CT-rich tract
     tttatggatatata  TA-rich tract