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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttgcatttgatcatggagccttcattttgtgcagcataaacatgaaccttttcggaaattttgtttgttttctgatag

Basic information

species Oryza sativa
transcript LOC_Os03g49420.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G033619_T01 (Zea mays), 5'ss of exon 2
CGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttgcatttgatcatggagccttcattttgtgcagcataaacatga-accttttcggaaattttgtt-tgttttctgatag-------------------
 || || || || ||||| |||||||| ||||||||||| ||||||||||||||||||||||||||||  |||||||||||||| || |  || || |||||    ||  ||| |  || |  | |||| | |||   ||| ||| |||| | || |   |  ||  ||| || |||| | | | |                    
TGCTGCATCAGCTATTCTGAACTTCAGTGAAAACTGCAGACCTGATATTTTGACACCATACTTGGATGTAATAGTTGGGAAACTTCTATTGTTACTCCAGgtggatctcacatctagtctttaaaccttaacttta-acagtatagacattagacataagcataatgtttattctgttattttaaacttgtatgcttatgatgtag

upper sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA05G28950.1 (Glycine max), 5'ss of exon 5
CGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgta---------------atccttgcatttgatcatggagccttcattttg-tgcagcataaacatgaaccttttcggaaattttgtttgttttctgatag-------
 || ||||| ||  |||| ||||||||||| |||||||  |||||||| || || ||||||||||||||||||||| | ||||||||   | | |||||||||               || ||      | ||  |       |||||||| |  |  ||    || |  | ||     |||||||  | || | | | |        
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttatagagaattattctcaagaataatgttattatggtcattttgctaaattatcgtaattattccttcacttaattttggatattctat-acatttttcag

upper sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 3
CGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgta----------atccttgcatttgatcatggagccttcatt----ttgtgcagcataaacatgaaccttttcggaaattttgtttgttttctgatag----------------
 || ||||| ||  |||| ||||||||||| |||||||  |||||||| || || |||||||||||||| |||||| | ||||||||   | | |||||||||          |   ||    |  |  ||   |   | ||     || ||| | || | |||     |         |||    |  |||  ||||                 
TGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGAATAGTTAGCAAACTACTTGTACTTCTTCAGgtatatttaatagagtattattctcaagaataatgttattatggtcattttgctgaattatcatatgattgaattattctttcacctaattttggatattctatacattttttag

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|29679231|gb|CB675506.1|CB675506
EST:     TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAG                         ACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
genomic: TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttg ... tttctgatagACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
EST: gi|571970|gb|D41481.1|D41481
EST:     TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAG                         ACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
genomic: TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttg ... tttctgatagACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
EST: gi|569698|gb|D40547.1|D40547
EST:     TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAG                         ACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
genomic: TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttg ... tttctgatagACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
EST: gi|29629840|gb|CB634849.1|CB634849
EST:     TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAG                         ACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT
genomic: TGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGCTTCAGgtaatccttg ... tttctgatagACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCT