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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGGTCAATGGTCAGCTGGAACCACTCAAATCGAAGGAAGCATCCACAATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttttgcatttattttaaacatcaaaaattcaatttctaaacaatagtagattagtaggttttactagataatgatctttaaataatgttcagt...

Basic information

species Oryza sativa
transcript LOC_Os05g29050.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G066485_T01 (Zea mays), 5'ss of exon 12
TGTTGGTCAATGGTCAGCTGGAACCACTCAAATCGAAGGAAGCATCCACAATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttttgcatttattttaaacatcaaaaattcaatttctaaacaatagtagattagtaggttttactagataatgatctttaaataatgttcagt-------------
||| ||||||||||||||||| ||||||||||| ||||||||||||||||||||||| |||||||| ||||| ||||||||||| || ||||| || |||||  |     ||| ||| | ||  || |   | |||  | |||| |||         | ||||  ||||    |||||||||||  || |   |||                 
TGTCGGTCAATGGTCAGCTGGGACCACTCAAATTGAAGGAAGCATCCACAATGCCTACTTTTCTCTGATTGAGAAGGCAGAACACTTCGTATACATTGAGgtttg-----tgcctttttctttgaccttttagatttgagttcttaact--------tcagtatttttttacggataatgatctgaaactggagttttccatgcattattcta

upper sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 13
TGTTGGTCAATGGTCAGCTGGAACCACTCAAATCGAAGGAAGCATCCACAATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttttgcatttattttaaacatcaa---aaattcaa-tttctaaacaatagtagattagtaggttttactagataatgatctttaaataatgttcagt
 ||  |||||||||| |||||||| | |||||  ||||  |||||||||||||||||||  ||||||||||| || || ||| | ||  | || || |||||      |   | |      || |  ||     || | ||| ||| | || | |  | | || | || |  |  ||   ||   |  ||  | | ||||    
CGTAAGTCAATGGTCTGCTGGAACAAGTCAAACTGAAGAGAGCATCCACAATGCCTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccgtatatctctgttgaattacaactttttgaagattgatggttttgcagatgattatac-caaaagtggttttacattgtta---

upper sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 13
TGTTGGTCAATGGTCAGCTGGAACCACTCAAATCGAAGGAAGCATCCACAATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttttgcatttattttaaacatcaaaaattcaatttctaaacaatagtagattagtaggttttactagataatgatctttaaataatgttcagt------
|||  |||||||||| |||||||| | ||||| |||||  |||||||||||||| ||||  ||||||||||| || || ||| | ||  | || || |||||      |   | |     ||  |  ||      |  | ||  ||    | | |||||  | |||||| | |||| || ||    |||     || |        
TGTGAGTCAATGGTCTGCTGGAACAAGTCAAACCGAAGAGAGCATCCACAATGCTTATTGCTCTCTTATTGAGAAAGCTGAATACTTCATCTACATTGAGgtattaaataaacttcctccttgtatctccg----ttgaattacaattttttgaagattgat-ggttttgc-agatgattataccaaaagtggttttaccttgtta

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|11442731|gb|BF430634.1|BF430634
EST:     ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAG                         AATCAATTTTTCATATCAGGCCTTTCAGGAGATGAAACGATAAAAAATCGT
genomic: ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttt ... ttttttgcagAATCAATTTTTCATATCAGGCCTTTCAGGAGATGAAACGATAAAAAATCGT
EST: gi|33677625|gb|CF305864.1|CF305864
EST:     ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAG                         AATCAATTTTTCATATCAGGCCTTTCAGGAGATGAAACGATAAAAAATCGT
genomic: ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttt ... ttttttgcagAATCAATTTTTCATATCAGGCCTTTCAGGAGATGAAACGATAAAAAATCGT
EST: gi|218478696|gb|FG959059.1|FG959059
EST:     ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAG                         AATCAATTTTTCATATCAGGCCTTTCAGGAGATGA
genomic: ATGCCTATTTTTCTCTTATTGAAAAGGCAGAACATTTTGTATATATCGAGgtccgcgttt ... ttttttgcagAATCAATTTTTCATATCAGGCCTTTCAGGAGATGA