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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGTGTTGAGCACTGGAAATGGAGTAAACGGTTTCACCCTTGATCCTTCCCTTGGGGAGTTCATTCTGACTCATCCAAACATCAAGgtctgtgattcaacaatgcaattcttgttcttaattggattggtcatggatcaaaacaaaatggccatttttggcacctgtactgtactcttctttttgtgtag

Basic information

species Oryza sativa
transcript LOC_Os05g36270.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


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

upper sequence: LOC_Os05g36270.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA16G28310.1 (Glycine max), 5'ss of exon 8
CTTGTGTTGAGCACTGGAAATGGAGTAAACGGTTTCACCCTTGATCCTTCCCTTGGGGAGTTCATTCTGACTCATCCAAACATCAAGgt-ctgtgattcaacaatgcaa-ttcttgttcttaattggattggtcatggatcaaaacaaaatggccatttttggcacctgtactgtactcttctttttgtgtag
|||||||| |||||||||   || || || |||||||||||||| || || ||||| |||||||| || ||||| || ||||| |||||  ||   |||     ||    ||  | || | ||||    |  ||   |   |        ||||   |     |   || |    |  |  ||  |||     
CTTGTGTTAAGCACTGGAGCAGGTGTTAATGGTTTCACCCTTGACCCATCTCTTGGTGAGTTCATCCTAACTCACCCTAACATTAAGgtattgctcttctcacttgtgggttactattataaattattcttctctctggaaatgcttgtctggctgctcagatcttatgaaactcag-cacctccttg-----

upper sequence: LOC_Os05g36270.3 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv18s0072g00770.t01 (Vitis vinifera), 5'ss of exon 7
CTTGTGTTGAGCACTGGAAATGGAGTAAACGGTTTCACCCTTGATCCTTCCCTTGGGGAGTTCATTCTGACTCATCCAAACATCAAGgtctgtgattcaacaatgcaattcttgttcttaattggattggtcatggatcaaaacaaaatggccatttttggcacctg-tactgtactcttctttttgtgtag---
|||||||| |||||||||| ||| || || || || ||||||||||| || |||||||||||||| || ||||| |||||||| |||||    |||| | || |  | |    |  |  |||   |||         |        |||    |||||    || || |    |  |        | ||| |   
CTTGTGTTAAGCACTGGAACTGGTGTTAATGGATTTACCCTTGATCCATCACTTGGGGAGTTCATACTTACTCACCCAAACATTAAGgt--aagatttatcatttgactgtcagaac--aatcacattaacatgctgttttcctctaat----attttccctacttgctgacatcttaaggaggatatgtgggaa

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