Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgattttctgcgcatacctaattctttccataggatagccgcaatactcacactgaacacacctacacatctggtcttgaag

Basic information

species Oryza sativa
transcript LOC_Os01g70300.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G700866_T01 (Zea mays), 5'ss of exon 11
TGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgattttctgcgcatacctaattctttccataggatagccgc------aatactcacactgaacac--acctacacatctggtcttgaag----------
|||||||||||||||||| ||| | || | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||| ||||| ||| |  ||||||||| ||  | |   ||| |    ||  |||  | || |  || |        || |  || || |||    | || | ||      || ||           
TGAAGAGCTTGAGAAAATAGCAATCGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAATCGTCTCTCATATTACAAAAGgtataatgctatcttcatccaatgtttcttctttgggttttcctctctaatgttattttcattggacatcagcatatatattaaccatttaataaatcttcag

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G300862_T04 (Zea mays), 5'ss of exon 1
TGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgattttctgcgcatacctaattctttccataggatagccgc------aatactcacactgaacac--acctacacatctggtcttgaag----------
|||||||||||||||||| ||| |||| | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||| ||||| ||||| |||||||||| |   | |   |||     |||  |||  | || |  || |        || |  || || |||    | || | ||      || ||           
TGAAGAGCTTGAGAAAATAGCAATTGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAATCGTCTCTCATACTAGAAAAGgtataacgctatctacattaaatatttcttctttgggttttcctctctaatgttattttcattggacatcagcatatatattaaccatttaataaatcttcag

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G169046_T01 (Zea mays), 5'ss of exon 4
TGAAGAGCTTGAGAAAATTGCAGTTGTCCATCTACTTCAGCAGAGGGCAATAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgattttctgcgcatacctaattctttccataggatagccg-caatactcacactgaacac--acctacacatctggtcttgaag-------------
  |||||||||||||||| ||| | || | |||||||||||||||||| ||||| ||||| || ||||| ||   || ||| ||||| ||||| ||| |      || |||     |||  |  |  ||    |    |  |      || |  || || |||    | || | ||      || ||              
--AAGAGCTTGAGAAAATAGCAATCGTTCGTCTACTTCAGCAGAGGGCGATAATTTCACTTATCGGAAATGTGGAGCAATCGTCTCTCATACTAGAATAA-CGctatcttcattcaatatttcttatttgggttttcctctctaatgttattttcattggacatcagcatatatattaacaatttaataaatcttcaggcg

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|55437242|gb|CV731820.1|CV731820
EST:     TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAG                         GCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA
genomic: TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgatttt ... ggtcttgaagGCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA
EST: gi|89180453|gb|CI044732.1|CI044732
EST:     TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAG                         GCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA
genomic: TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgatttt ... ggtcttgaagGCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA
EST: gi|88907427|gb|CI090221.1|CI090221
EST:     TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAG                         GCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA
genomic: TAATATCACTCATTGGAAACGTACGGCGATCATCTCTTATACTGGAAAAGgtatgatttt ... ggtcttgaagGCCTTTCAAGTGTTGAGGAAAAGCGGGGTGAATGTCCAGATGATCTCGCAA