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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctgttaatgtcaaatggttcatgactatgcatgcacttgagtatgaaaacacctttttttagtgaattgatgagaactttggaatttttgttctcagGGTGATTTGCGCAAGCACTTGAGTAGGAAAGGGGCTCTGGAACCGTCATATGCAGTGAAATTAGCTCTTGATATTGCAAG

Basic information

species Oryza sativa
transcript LOC_Os01g54480.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54480.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G045366_T01 (Zea mays), 3'ss of exon 5
attctgttaatgtcaaatggttcatgactatgcatgcacttgagtatgaaaacacctttttttagtgaattgatgagaactttggaattt---ttgttctcagGGTGATTTGCGCAAGCACTTGAGTAGGAAAGGGGCTCTGGAACCGTCATATGCAGTGAAATTAGCTCTTGATATTGCAAG
||| |  |||| | |  ||       | |  |  || |    | |   |   ||  || | | | ||  ||| ||| || |    ||      || || ||||||||| |||||||  |||||||||| |||||| ||||||  ||| |||||||| ||||| ||||||||||||||||||||
attgtcataat-ttatgtgacatg-aagttcgtgtgtatcaaaatgcaacttcatattatgtca-tgggttgttgaaaattacaaaaaaaaaattattttcagGGTGACTTGCGCACTCACTTGAGTAAGAAAGGAGCTCTGCCACCATCATATGCTGTGAAGTTAGCTCTTGATATTGCAAG
















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|117235877|gb|CT847833.1|CT847833
EST:     CTGTAACACAAAGCAGCCCAATGATGATTGTAATGGAATTTATGCCCAAG                         GGTGATTTGCGCAAGCACTTGAGTAGG
genomic: CTGTAACACAAAGCAGCCCAATGATGATTGTAATGGAATTTATGCCCAAGgtttgtccta ... ttgttctcagGGTGATTTGCGCAAGCACTTGAGTAGG
EST: gi|163928081|gb|EG712985.1|EG712985
EST:     CTGTAACACAAAGCAGCCCAATGATGATTGTAATGGAATTTATGCCCAAG                         GGTGATTTGCGCAAGCACTTGAGTAGGAAAGGGGCTCTGGAACCGTCATAT
genomic: CTGTAACACAAAGCAGCCCAATGATGATTGTAATGGAATTTATGCCCAAGgtttgtccta ... ttgttctcagGGTGATTTGCGCAAGCACTTGAGTAGGAAAGGGGCTCTGGAACCGTCATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaaacacctttttttagtgaattgatgagaactttggaatttttgttctcagGGTGATTTGCGCAAGCACTTGAGTAGGAAAGGGGCTCTGGAACCGTCATATGCAGTGAAATTAGCTCTTGATATTGCAAG
                      aattgat  putative branch site (score: 4)
                                          tttttgttctc  putative PPT
           tttttttagtgaatt  TA-rich tract