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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtttagttgttgaaaatgtgtgatacagtgctcattgtttttcaatcatcagcagagaaacatgctttagcaatttgctatatccttgactatttaacGTTTTCAGACAGCGCAATTTTCCTTAAAGGAGGCACCTGTCAGAATAACGTTGTTCTCACGTAGATGCAACAGGCGTCTAG

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
intron # 7
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G047894_T02 (Zea mays), 3'ss of exon 7
gtgtttagttgttgaaaatgtgtgatacagtgctcattgtttttcaatcatcagcagagaaacatgctttagcaatttgc------tatatccttgactatttaacGTTTTCAGACAGCGCAATTTTCCTTAAAGGAGGCACCTGTCAGAATAACGTTGTTCTCACGTAGATGCAACAGGCGTCTAG
     ||  | |  ||||  ||  || || | | |||||||||  | |  |  |  ||  |||||| |   | |  | |       ||  ||||  |       |||||||||| |||| |||||| |||| |||||   ||| || || ||||| ||||||||| | ||||||||||||||| |||
----atatatttcaaaaagttgcaatgca-ttcccattgttttcta-tacttggaggacgaacatgatcaggaagctggtgtcctttaactcctatagacccatacGTTTTCAGTCAGCACAATTTACCTTGAAGGATAGACCAGTGAGGATAACATTGTTCTCAAGGAGATGCAACAGGCGTTTAG
















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|117222519|gb|CT845898.1|CT845898
EST:     CTTGATGAATTTATCATCCCACTGGTCCAAGGAA                         GTTTTCAGACAGCGCAATTTTCCTTAGAGGAGGCACCTGTCAGAATAACGT
genomic: CTTGATGAATTTATCATCCCACTGGTCCAAGGAAatatccaaaa ... actatttaacGTTTTCAGACAGCGCAATTTTCCTTAAAGGAGGCACCTGTCAGAATAACGT
EST: gi|29624693|gb|CB629704.1|CB629704
EST:     CTTGATGAATTTATCATCCCACTGGTCCCAAGGAA                         GTTTTCAGACAGCGCAATTTTCCTTAAAGGA
genomic: CTTGATGAATTTATCATCCCACTGGTCC-AAGGAAatatccaaaa ... actatttaacGTTTTCAGACAGCGCAATTTTCCTTAAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcatcagcagagaaacatgctttagcaatttgctatatccttgactatttaacGTTTTCAGACAGCGCAATTTTCCTTAAAGGAGGCACCTGTCAGAATAACGTTGTTCTCACGTAGATGCAACAGGCGTCTAG
                                      atccttgac  putative branch site 
                                             actatttaa  TA-rich tract