Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATAGATAATAAAGCTGTTCGTGAAGTTCAAAAACCACTAGAGGATATCACTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcatccttttgagctgccgattagaaatggtctaggttttatctagaggacaatgcattcaataactgaaagcagccaccttttatttcaactctcttgaatttacttactcacttgggctactggaaatttataatttttttcttcaaattttag

Basic information

species Oryza sativa
transcript LOC_Os08g29370.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G015967_T01 (Zea mays), 5'ss of exon 2
AATAGATAATAAAGCTGTTCGTGAAGTTCAAAAACCACTAGAGGATATCACTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcatccttttgagctgccgattagaaatggtctaggttttatctagaggacaatgcattcaataactgaaagcagccacc-ttttatttcaactctcttgaatttacttactcacttgggctactggaaatttataatttttttcttcaaattttag
|||||||||||||||| |||||||||||||||| || || ||||||||||||||||| || ||| ||||||||||||||||||||||||||||||||||||||||||||  | | |   |    || |||                  |   ||| ||||||||  || || ||||||||   || ||   || ||||| || | |||||  ||   ||| |    |    | || |||| | ||||  ||| ||||  |||
AATAGATAATAAAGCTATTCGTGAAGTTCAAAAGCCGCTGGAGGATATCACTGACAGCCTCAAGGTTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcattatctaggtttc---atcaga------------------tgatggaaaatgcatttgattacggaaagcagttgccattccgttccaactgtcatcaatttgatt-tacacctcttttgt--ggaacttatgaattttc-ctttaaatgctag

upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA13G23850.1 (Glycine max), 5'ss of exon 2
AATAGATAATAAAGCTGTTCGTGAAGTTCAAAAACCACTAGAGGATATCACTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcatccttttgagctgccgattagaaatggtctaggttttatctagaggacaatgcattcaataactgaaagcagccaccttttatttcaactctcttgaatttacttactcacttgggctactggaaatttataatttttttcttcaaattttag
 || || ||||| ||  || | ||||| ||||||||||| || |||||||| || ||||| ||||||||||| || |  ||  | || || || ||||||||||| |||              ||||| | ||        | || ||||        |||      |   ||  |         || | |||||  || |||     ||   | | | ||    |||  | ||| ||                       
TATTGACAATAAGGCCATTAGAGAAGTGCAAAAACCACTTGAAGATATCACAGAGAGTCTCAAGATTGCTGGAGTCAAGGCACTTGACTCTGTGGAAAGAgtaagacataa------------gattaaagat--------tcttgtcta--------tgcggcttgtgcatggga-------ttttatgtttcatttcccttagggataaaaattgatttactttacatggaatgtag----------------------
















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|29643946|gb|CB648953.1|CB648953
EST:     CTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGA                         AATGTAAGACAAGCATCGAGGGCACTGAGTAATGGGAGGAACCTAATTCTT
genomic: CTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcatc ... caaattttagAATGTAAGACAAGCATCGAGGGCACTGAGTAATGGGAGGAACCTAATTCTT
EST: gi|51946079|gb|CV152420.1|CV152420
EST:     CTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGA                         AATGTAAGACAAGCATCGAGGGCACTGAGTAATGGGAGGAACCTAATTCTT
genomic: CTGACAGTCTTAAGATTGCTGGTGTTAGAGCCTTGGATTCAGTTGAAAGAgtaagtcatc ... caaattttagAATGTAAGACAAGCATCGAGGGCACTGAGTAATGGGAGGAACCTAATTCTT