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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgtctaacataattgataagtggttgaaattggctgcatatatcacaagcgatacttgattacgttttgcag

Basic information

species Oryza sativa
transcript LOC_Os12g20150.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g20150.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G040968_T03 (Zea mays), 5'ss of exon 2
CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgtctaa-cataattgataa-gtg---gttgaaattggctgcatatatcacaagcga--tacttgattacgttttgcag
|||||  |||||||||| |||||||||  ||||||||||||| || ||||||||||||||||||||||| || |||| |||||| |||||||||||||||||||| ||||| || || |||||| || ||    ||||||||||| ||||| |||  |||   |  |  |||   | |||||||||
CTTGCTGTCATTATCTTATCTAAGATCAATTCTAATGAAGGGTCTGGAAAGTGGCCTTAGAAATGATGCTCCAGATAGTGCTATTGCAATGCGACAAAAGgttattttgtcaaaacacaattgagaaagtatgtgttgaaattggatgcatgtatttcaattaaattcattgtcgaggttttgcag

upper sequence: LOC_Os12g20150.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA10G44540.1 (Glycine max), 5'ss of exon 7
CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttat-cttgtctaacataattgataagt--ggttgaaattggctgcatatat-cacaagcgatacttgattacgttttgcag-----------------------
  || |||| |||  |  | | |||     | |  | ||||| |||||||||||||| || |||||||| || |||  ||| ||||| ||||| |||||||| |  ||  | | |   ||||  | ||   |      |  | |||  ||  |    ||   || |  ||  |  |||||                          
AATGGAATCTTTAAATGTTTTGAGAGAAACTATTGTAAAGGGACTTGAAAGTGGCCTCAGGAATGATGCTCCAGATTCTGCAATAGCTATGCGTCAAAAGgtgacactaattttattcaattatttagccagaccttgagagtctggttagctatttaaagaatgccagaacatcttttgattctcatcttttttggaaagtacag

upper sequence: LOC_Os12g20150.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv05s0062g00890.t01 (Vitis vinifera), 5'ss of exon 7
CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgtctaac-ataattgataagtggttgaaattggctgcatatatcacaagc--gatact--tgattacgttttgcag-----------------------------------------
    ||||| ||   | |||| |||   ||  |  ||||||| ||||||||||| || ||||||||||| ||||||  ||| ||||||||||| ||||||||       |   |  |||||   |  |   | |       ||| | | ||| ||| |  ||| ||  |  ||  |||   ||                                          
TGCACAATCTTTGAATGCTCTTAGAGAAGTAATTGTGAAGGGTCTTGAAAGTGGTCTCAGAAATGATGCCCCTGATGCTGCAATAGCAATGCGTCAAAAGgtggaacaattacatgataatccttctgcattagcttcaaactgaaaaaatctcaaacttgatgctattagttttgttcctcaaattctgttagttttattcctcacaatacttgttttgaacag

upper sequence: LOC_Os12g20150.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ25586 (Selaginella moellendorffii), 5'ss of exon 7
CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgtctaacataattgataagtggttgaaattggctgcatatatcacaagcgatacttgattacgttttgcag
| ||||  | ||  |    ||  |  | |||||  |||||||||| |||||||| || |||||||||||| | ||  ||||||| || ||||| |||||||| |    |    | || | | ||  | |  | | |   ||| | | | |   |                         
CATGCATGCTTTGACGGGACTTCGGGCTGTTCTTTTGAAGGGCCTCGAAAGTGGACTAAGAAATGATGCGTCCGACGATGCTATTGCCATGCGGCAAAAGgtaaag--gctgcagatgagt-atttgcgtatcagac-agcttcttgttttgtag------------------------

upper sequence: LOC_Os12g20150.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ22307 (Selaginella moellendorffii), 5'ss of exon 7
CTTGCAATCATTATCTTCTCTAAGATCGGTTCTAATGAAGGGCCTTGAAAGTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgtctaacataattgataagtggttgaaattggctgcatatatcacaagcgatacttgattacgttttgcag
| ||||  | ||  |    ||  |  | |||||  |||||||||| |||||||| || |||||||||||| | ||  ||||||| || ||||| |||||||| |    |    | || | |  |     ||   | |  ||| | | | |   |                         
CATGCATGCTTTGACGGGACTTCGGGCTGTTCTTTTGAAGGGCCTCGAAAGTGGACTAAGAAATGATGCGTCCGACGATGCTATTGCCATGCGGCAAAAGgtaaag--gctgcagatgagtatttg--cgtatcagtcagcttcttgttttgtag------------------------

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|29629544|gb|CB634553.1|CB634553
EST:     GTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAG                         TGGCGCCTTTGTGAAATTAGTCTTGAGGATTATTCATTTGTTCTGTTAAGC
genomic: GTGGCCTTAGAAATGATGCGCCTGATAATGCTATAGCAATGCGACAAAAGgttatcttgt ... cgttttgcagTGGCGCCTTTGTGAAATTAGTCTTGAGGATTATTCATTTGTTCTGTTAAGC