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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agttgattggtccatctctggaaatcagattgcggactattttgctgtccaaattattttctgctgtgatattatttactgagtttcttccattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAAAAAGGCTCCATGTACCCGTTCCGAAATATGGATGATCGAGAAAGGTTCC

Basic information

species Oryza sativa
transcript LOC_Os01g67250.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67250.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G093119_T01 (Zea mays), 3'ss of exon 9
-agttgattggtccatctctggaaatcagattgcggactattt-tgctgtccaaattattttctgctgtgatattatttactgagtttcttccattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAAAAAGGCTCCATGTACCCGTTCCGAAATATGGATGATCGAGAAAGGTTCC
    ||  ||     |   ||    || |    |     |||  |||| ||||||  |  || || | ||| | |   |    | | |||| | ||||||||||| |||||||| |||||||||| ||||||||||||| |||||||||||||||| |||||||| || |||||||||||||||||||| ||||||||||| 
tgtgtgtgtgcctgctgaatgagtctctgcacacaattaattaatgctttccaaaacaagttttg-tatgacacttggtgacca-tctctttccttctccagTACTATACGGCAACAGTTGATCAACACTGAGGATATACGGCGCATTCGTAAAAAAGCTCCATGCACTCGTTCCGAAATATGGATGATTGAGAAAGGTTCA

upper sequence: LOC_Os01g67250.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G421829_T01 (Zea mays), 3'ss of exon 9
------agttgattggtccatctctggaaatcagattgcggactattttgctgtccaaattattttctgctgtgatattatttactgagtttcttc-cattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAAAAAGGCTCCATGTACCCGTTCCGAAATATGGATGATCGAGAAAGGTTCC
      || || |   | | |||||| ||  ||  |   | |      |||| |||||| ||  ||||| |||||   || || ||||   ||||  | ||||||||||| |||||||| ||||||||||  |||||||||||| ||||||||||||||||||||||||| || |||||||||||||||||||| ||||||||||| 
atgtagagatgctgaatgcgtctctgcaag-caattaatgaa------tgctttccaaaataacttctggtgtgagtatacttgctgaccgtcttttctttctccagTACTATACGGCAACAGTTGATCAATACTGAGGATATACGGCGCATTCGTAAAAAGGCTCCATGCACTCGTTCCGAAATATGGATGATTGAGAAAGGTTCA
















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|58610682|gb|CK038394.1|CK038394
EST:     ACACCGAAGAGAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGA                         TACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
genomic: ACACCGAAGAGAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGAgtatgtatac ... cattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
EST: gi|58656617|gb|CK045297.1|CK045297
EST:     ACACCGAAGAGAAGGGTGCAAATGGATGATGCCATGGTTATACATGCTGA                         TACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
genomic: ACACCGAAGAGAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGAgtatgtatac ... cattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
EST: gi|58590475|gb|CF988783.1|CF988783
EST:     ACACCGAAGAGAAAAGTGCAAATGGATGAGGCCATGGTTATACATGCTGA                         TACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
genomic: ACACCGAAGAGAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGAgtatgtatac ... cattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
EST: gi|29625771|gb|CB630782.1|CB630782
EST:     GAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGA                         TACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA
genomic: GAAAAGTGCAAATGGATGATGCCATGGTTATACATGCTGAgtatgtatac ... cattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtccaaattattttctgctgtgatattatttactgagtttcttccattctccagTACCATACGGCAGCAGTTGATCAGCACTGAGGATATAAGGCGCATTCGTAAAAAGGCTCCATGTACCCGTTCCGAAATATGGATGATCGAGAAAGGTTCC
                                      tttcttccattctcc  CT-rich tract
                   tgtgatattattta  TA-rich tract