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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgttcttctccccctgtccttctccacatacgtattgcacactttcatactcataatgatcacattgaattgatatgtttcagGATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACCATCATCAAG

Basic information

species Oryza sativa
transcript LOC_Os01g04660.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g04660.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G174343_T07 (Zea mays), 3'ss of exon 4
gtctgttctt---ctccccctgtccttctccacatacgtattgc-acactttcatactcataatgatcacattgaattgatatgtttcagGATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACCATCATCAAG
|| ||| | |   |||  | | |||||||  |  ||| |  | | |  |  | |       | | | |    |||||||||    | ||||||||||||||||  |||| |||||| |||| |||||||| |||||||||||| ||||||
gtgtgtgcctaacctcttcgtttccttctggat-tacatgcttcgatgccatta-gtaagcagtaaccgatctgaattgatgctgtacagGATTTATCATGGCAGTGCTATGTTACCTGCATTTCTTTCCTCCTCCATACCATGATCAAG
















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|16575632|gb|BI802928.1|BI802928
EST:     AGATGACTATCGACACCACTGGGAGGATGTGTTTGCTG-CGGCCTACTAG                         GATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACC
genomic: AGATGACTATCGACACCACTGGGAGGATGTGTTTGCTGGCGGCCTACTAGgtctgttctt ... tatgtttcagGATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACC
EST: gi|88266206|gb|CI377108.1|CI377108
EST:     AGATGACTATCGACACCACTGGGAGGATGTGTTTGCTGGCGGCCTACTAG                         GATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACC
genomic: AGATGACTATCGACACCACTGGGAGGATGTGTTTGCTGGCGGCCTACTAGgtctgttctt ... tatgtttcagGATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgtattgcacactttcatactcataatgatcacattgaattgatatgtttcagGATTTATCATGGCGATGCTCTGTTACTTGCACTTCTTTCCACCTCCATACCATCATCAAG
                                       aattgat  putative branch site (score: 4)
                                       aattgatat  TA-rich tract