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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacttttcttccatttttttcttctcttgtagcaaccagcagtacttatagtttttcatcatcaccaactatatttgctgactaaaatttggcatctcagTCTCTGTTCAATGGAAGCTCTTAGCAACAAGTAATGAGCCACCCCCTCCTCGAGCATATCATTCTATGACTTGCATAGGGTCTCGATTTCTTTTATTTGG

Basic information

species Oryza sativa
transcript LOC_Os03g61950.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g61950.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G351160_T01 (Zea mays), 3'ss of exon 10
tacttttcttccatttttttcttctcttgtagcaaccagcagtacttatagtttttca-tcatcaccaactatatttgctgactaaaatttgg---catctcagTCTCTGTTCAATGGAAGCTCTTAGCAACAAGTAATGAGCCACCCCCTCCTCGAGCATATCATTCTATGACTTGCATAGGGTCTCGATTTCTTTTATTTGG
      |  ||||||  ||| || |  ||| | | | | |  |  | | | ||  ||| ||| |||    ||| |||| || || | ||||     | || |||| |||||||||||||||| |||| ||||||| ||||| ||||| |||||||| ||||||||||| || |||| |||||||||||||||||||||||||||
--tccatgatccattgctttgttttaatgtgg-acctacctttcatgacacttgctcaatcagcacgtg-tatctttgttggctgatatttcaatccttcacagTATCTGTTCAATGGAAGCGCTTACCAACAAGCAATGAACCACCTCCTCCTCGGGCATATCATTCCATAACTTCCATAGGGTCTCGATTTCTTTTATTTGG
















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|88388765|gb|CI592653.1|CI592653
EST:     GCTAAGTAGGTATGATGTGTACTACAATGAATGTATTATTTTAGACAGGG                         TCTCTGTTCAATGGAAGCTCTTAGCAACAAGTAATGAGCCACCCC-TCCTC
genomic: GCTAAGTAGGTATGATGTGTACTACAATGAATGTATTATTTTAGACAGGGgtaagcacca ... ggcatctcagTCTCTGTTCAATGGAAGCTCTTAGCAACAAGTAATGAGCCACCCCCTCCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatagtttttcatcatcaccaactatatttgctgactaaaatttggcatctcagTCTCTGTTCAATGGAAGCTCTTAGCAACAAGTAATGAGCCACCCCCTCCTCGAGCATATCATTCTATGACTTGCATAGGGTCTCGATTTCTTTTATTTGG
                                  gactaaa  putative branch site (score: 2)
                     aactatattt  TA-rich tract