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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatttttccatccctacatgtgtatacatttgtatgttagttgtctttcaatatataagttttttttccttatcacaacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC

Basic information

species Oryza sativa
transcript LOC_Os02g13970.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G019358_T03 (Zea mays), 3'ss of exon 7
ttatttttccatccctacatgtgtatacatttgtatgt-tagttgtctttcaatatataagttttttttccttatca--caacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC
   |||| | |  | |   ||| |       ||||  | || || | ||    | ||  ||||  ||||||||| ||   | ||   || |  |  | ||||||||||||||| ||| ||||||| |||||||| |||||||| ||||||||||| |||||||||||||| ||||||||||||   |||||||||||||||| 
--tttttgctaatcatgattgttttatttcatgtaaatgtatttattttcatttttacgagttcattttccttaacagctagcacaataatc-tcatttttagGCAACTTATCTGGAGAGATTGTGTGGGGAGCTCTTGATGACGTTGTGATGGGTGGTGTTAGTGAAAGTACATTCCAAATCTTGCCAACAGGAAGTGAAAG

upper sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 7
lower sequence: AT4G18810.1 (Arabidopsis thaliana), 3'ss of exon 7
ttatttttccatccctacatgtgtatacatttgtatgttagttgtctttcaatatataagttttttttccttatcacaacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC
                   |  ||        | |  ||  ||   |||| ||   |     |    |  | |  |  || |   | |   | | | |||  |||   |      |  |   |||||||||| | ||||||||||| ||||||||||| || ||||| |  |||  | |  | | ||| |   |||||| 
------------------gtaagttgggtcaaggaacttgattaggtttctatgagttgacatggcattataa--aagacttaccaatatatctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGGGAGGTGTCAGCGAAAGTAACTTCATAGTAGATCTAACCGCTGGTGAAAA

upper sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv10s0003g01640.t01 (Vitis vinifera), 3'ss of exon 7
ttatttttccatccctacat-gtgtatacatttg-tatgttagttgtctttcaatatataagttttttttccttatcacaacatgttagttatttt-attt---agGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC
       | ||||  || ||  | |||  ||| | ||  | |||| | || || |  | ||  |||| |    |||    | |  |  ||  |||  ||||   |||    |||||| || |  ||  |||||| ||  | |||||||||||||||||||| |||||||| || ||||| ||| |  | || || ||  | |||| 
-----catgcatctttatattatttatttattagatacatgagtt-tgttccagtgcacaatcttttctaatatatggataaacttctgtggtttccattttgcagGTGGTTTATCCAGAGAACTTCCTTGGGGTGCTTTAGATGATGTTGTGATGGGAGGAGTTAGTGAGAGTACATTTCAAGTAGACCCCACTGGTGGCGAAAA

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|29626259|gb|CB631270.1|CB631270
EST:     CAAGAACAGTGTGGGTCTGACTGAAGGGAAACTGCTTTTTGGGGGCACAG                         GCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGG
genomic: CAAGAACAGTGTGGGTCTGACTGAAGGGAAACTGCTTTTTGGGGGCACAGgtaaatcttt ... ttttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGG
EST: gi|58607818|gb|CK035851.1|CK035851
EST:     CAAGAACAGTGTGGGTCTGACTGAAGGGAAACTGCTTTTTGGGGGCACAG                         GCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGG
genomic: CAAGAACAGTGTGGGTCTGACTGAAGGGAAACTGCTTTTTGGGGGCACAGgtaaatcttt ... ttttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcaatatataagttttttttccttatcacaacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC
                                             ttttattt  CT-rich tract
     aatatataagtttttt  TA-rich tract