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

...agtctcacccttaagcagtggctaggactattttggtgattatctggctagacctttagaagtaagcatgaataatatatcctctgcctcatatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAG

Basic information

species Oryza sativa
transcript LOC_Os03g49730.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49730.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G457881_T03 (Zea mays), 3'ss of exon 5
----agtctcacccttaagcagtggctaggactattttggtgattatctggctagacctttagaagtaagcatgaataatatatcctctgcctcatatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAG
      |   ||     |  ||  | ||||| || || |  |      || |  |       ||| ||||||||||| ||  || |||     ||||| |||||||||||||||| || |||||||||||||| |||||||| ||||| |||||||||||||| ||||||||  |||| ||||||||||||||
tccatatagtacttcagaatagctgttaggattaattggcaggcccaatgacgtgtgtcgatgaattaagcatgaattattgattctc----acatatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAG

upper sequence: LOC_Os03g49730.3 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv18s0001g03730.t01 (Vitis vinifera), 3'ss of exon 5
---agtctcacccttaagcagtggctaggactattttggtgattatctggctagacctttagaagtaagcatgaataatatatcctctgcctcatatg--tgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAG
     | |     ||   | |      |   || ||| |  |  |    | | ||  | | || | |    ||  | | ||||  ||   ||||  ||  ||||| |||| ||||| ||||||||||| ||||||  |||||| || || ||||| ||||||||||| |||||  | || ||||||||||||||
atttatttattttttcccctgaaatctga--tacttttgcaa--agggagattgatgtct-gatgaatttttgtctgaaatatgatccttctcaattgcctgcagCTTGCATGCAATGCTCATACCATTTGTGATGGTGAACTAAGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAG
















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|58682029|gb|CK070716.1|CK070716
EST:     TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAG                         TTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGTCCCTTGGG
genomic: TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgctac ... atatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGG
EST: gi|58669228|gb|CK057914.1|CK057914
EST:     TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAG                         TTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGTCCCTTGGG
genomic: TTCCTTCATTCGAGCTTGATCTTAAGGAAATTACACATACCTTTTCCAAGgtaatgctac ... atatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctagacctttagaagtaagcatgaataatatatcctctgcctcatatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAG
                      atgaataatatat  TA-rich tract