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

gtatgcattcagattctcaaatatcaattgtactttcgttaaacagattgaattgatcaaaagaaagctgggaatttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGGCAAAATCGTCCGCGGCCTCGCCGGTGTTCCTGACAAAGGCCCCGTCCTG

Basic information

species Oryza sativa
transcript LOC_Os01g25990.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g25990.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G031568_T01 (Zea mays), 3'ss of exon 9
---gtatgcattcagattctcaaatatcaattgtactttcgttaaacagattgaattgatc-------aaaagaaagctgggaa---------------tttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGGCAAAATCGTCCGCGGCCTCGCCGGTGTTCCTGACAAAGGCCCCGTCCTG
   ||| || |  | ||||| |||  |  ||| ||||| | |    |    |   |   ||       ||||| ||||  | ||                || ||||||||| | |||| |   ||||||||||||||| | || || ||||   | || |||||||||||||| || |||||||| |||||||||||||| ||| ||
gtagtacgcctcaaaattctaaaagttgcattctacttccatctctctctctctttctgtctgtctggaaaagtaagcgagaaaataaaaatgatgaatcttgtgcagGCTGTTCCACCTTGCACTGAGCCCAGTCATGATGTCCACCCTGAAGGATGGGAAAATCGTCCGCGGGCTTGCCGGTGTCCCTGACAAAGGCCCAGTCTTG
















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|29613578|gb|CB618591.1|CB618591
EST:     CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAA                         GCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
genomic: CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAAgtatgcattc ... atttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
EST: gi|29671668|gb|CB667943.1|CB667943
EST:     CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAA                         GCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
genomic: CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAAgtatgcattc ... atttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
EST: gi|13420626|gb|AU174716.1|AU174716
EST:     CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAA                         GCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
genomic: CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAAgtatgcattc ... atttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
EST: gi|29674811|gb|CB671086.1|CB671086
EST:     CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAA                         GCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
genomic: CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAAgtatgcattc ... atttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
EST: gi|29613651|gb|CB618664.1|CB618664
EST:     CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAA                         GCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG
genomic: CTCCCACCTACAATAAGTGAATTCAAGAGAACATTTGGTGAAGATTTCAAgtatgcattc ... atttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtactttcgttaaacagattgaattgatcaaaagaaagctgggaatttctgcagGCTGCTTCACCATTTGCTGAGCCCAGTCATGCTATCTACTCTGAGAAACGGCAAAATCGTCCGCGGCCTCGCCGGTGTTCCTGACAAAGGCCCCGTCCTG
                      aattgat  putative branch site (score: 4)
                                              tttctgc  putative PPT
                  attgaatt  TA-rich tract