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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttatttaaatgtgcttacattttatgataaatctttttgcgaaattgcacttttcctttttttaatttgaagtatgtatgttaattgcacagaaaaacatagtgaatcagttttattaatagaataaatgttacatggataactgatattagatgctgccggcaactttctgactcataagtcgtgctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGATCTACATTGACAGGCAACTACATAATCGACAG

Basic information

species Oryza sativa
transcript LOC_Os01g51380.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g51380.1 (Oryza sativa), 3'ss of exon 10
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 9
gttagttatttaaatgtgcttacattttatgataaatctttttgcgaaattgcacttttcctttttttaatttgaagtatgtatgttaattgcacagaaaaacatagtgaatcagttttattaatagaataaatgttacatggataactgatattagatgctgccggcaactttctgactcataagtcgtgctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGATCTACATTGACAGGCAACTACATAATCGACAG
                                                                                                                                                ||   ||| |  |||  |   |   |  | |||||| |            | | |||||| || ||||| | ||||||||| |||||||| || |||||||||||||| ||  | ||| | |||||  | ||||| |||
-----------------------------------------------------------------------------------------------------------------------------------------------gtacgagatgtctgatcatcgagatcatctactgacttac-----------tcgcagATATCACTCATCCGATTCCTGATCTCACTGGTTACATTACTGAGGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAG
















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|33811101|gb|CF331441.1|CF331441
EST:     AAGAAAAGGATCAATTACGCAGATACCCATTTTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA
genomic: AAGAAAAGGATCAATTACGCAGATACCCATTTTAACCATGCCTAATGATGgttagttatt ... gctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA
EST: gi|58687170|gb|CK075857.1|CK075857
EST:     GATACCCATTTTAACCATGCCTAATGATG                         ATATTACACATCCGACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA
genomic: GATACCCATTTTAACCATGCCTAATGATGgttagttatt ... gctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA
EST: gi|27576717|gb|CA999411.1|CA999411
EST:     AAGAAAAGGATCAATTACGCAGATACCCATTTTAACCATGCCTAATGATG                         ATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA
genomic: AAGAAAAGGATCAATTACGCAGATACCCATTTTAACCATGCCTAATGATGgttagttatt ... gctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactgatattagatgctgccggcaactttctgactcataagtcgtgctgttgtagATATTACACATCCAACTCCTGATCTTACTGGTTATATCACTGAGGGACAGATCTACATTGACAGGCAACTACATAATCGACAG
                           ttctgac  putative branch site (score: 2)
     atattagat  TA-rich tract