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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgattcaacaatgcaattcttgttcttaattggattggtcatggatcaaaacaaaatggccatttttggcacctgtactgtactcttctttttgtgtagATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAATTGGGATGCTCCTACAGCGAA

Basic information

species Oryza sativa
transcript LOC_Os05g36270.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g36270.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G322953_T03 (Zea mays), 3'ss of exon 5
gtctgtgattcaacaa----tgcaattcttgttcttaattg--gattggt---catggat-------caaaacaaaatggccat-------ttttggcacc-tgtactgtac--------tcttctttttgtgtagATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAATTGGGATGCTCCTACAGCGAA
||   ||||  || ||      || ||||| |  ||  | |  ||| | |   | ||| |        ||||||||||||   |       ||| || | |  ||  ||| |        |  | || ||||| |||||||||  | ||| |||||||||||||| ||||||||||| || ||||| |||||||  |||||||| ||
gttaatgataaaaaaaactccacacttcttttctttcctggctgatcgatacccctggttagcactataaaacaaaatggtactacttgagtttgggtatcacgttttgtgcgtgcttcgttcttttcttgtgcagATACCAAGGAAAGGGAAGATCTATTCAGTCAACGAAGGGAACGCCAAAAACTGGGATGGGCCTACAGCCAA
















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|29670800|gb|CB667075.1|CB667075
EST:     CCCTTGATCCTTCCCTTGGGGAGTTCATTCTGACTCATCCAAACATCAAG                         ATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAAT
genomic: CCCTTGATCCTTCCCTTGGGGAGTTCATTCTGACTCATCCAAACATCAAGgtctgtgatt ... ttttgtgtagATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaaaacaaaatggccatttttggcacctgtactgtactcttctttttgtgtagATACCAAATAGAGGAAAGATCTATTCAGTGAACGAAGGGAATGCGAAAAATTGGGATGCTCCTACAGCGAA
                                 ctgtactcttcttttt  CT-rich tract
     aacaaaat  TA-rich tract