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'   		20  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtgtttccctatattttctgcatattaacgatacaacacgttttcctgctctgctttctgtactctaattttgttttccttccttcagCATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACG

Basic information

species Oryza sativa
transcript LOC_Os07g49270.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G134396_T02 (Zea mays), 3'ss of exon 4
gtgagtgtgtttccctatattttctgcatattaacgatacaacacgttttcctgctctgctttctgtactctaattttgttttccttccttcagCATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACG
|| ||||    ||   | || |    ||| || || | ||   |  |  |          ||||| | | || ||  |  |||| ||| ||||||| ||||| |||||||||||||| || |||||||| ||||||||||||||  
gtaagtgcagctcttcagatatga-acatgttgactagacgg-atatcatttaagatgattttcttttccctgat--taatttctttctttcagCACCATTTCGAAATGGTTGATGGCGTCATTCATGTGTACCCCAATAAAGATT
















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|33678657|gb|CF306896.1|CF306896
EST:     CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAA                         CATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGAC
genomic: CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAAgtgagtgtgt ... cttccttcagCATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGAC
EST: gi|58609363|gb|CK037396.1|CK037396
EST:     CAAAACCTAATCCTAACCCTTTTTATTACGAGCAGCAGACTAAAACTGAA                         CATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGAC
genomic: CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAAgtgagtgtgt ... cttccttcagCATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGAC
EST: gi|33678240|gb|CF306479.1|CF306479
EST:     CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAA                         CATCATTTTGAAATG
genomic: CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAAgtgagtgtgt ... cttccttcagCATCATTTTGAAATG
EST: gi|33679186|gb|CF307425.1|CF307425
EST:     CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAA                         CATCATTTTGAAATG
genomic: CAAAACCTAATCCTAACCCTTTCTATTACGAGCAGCAGACTAAAACTGAAgtgagtgtgt ... cttccttcagCATCATTTTGAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacacgttttcctgctctgctttctgtactctaattttgttttccttccttcagCATCATTTTGAAATGGTTGATGGTGTTATTCATGTATACCCCAATAAAGACG
                             ctctaat  putative branch site (score: 3)
                             ctctaattttgttttc  CT-rich tract
                              tctaattttgtttt  TA-rich tract