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

...acattcctgaaaagttcagtttttatctgttcgtccatatattgcatatggctattgactaccacaggtgttgaatgctgtgctctactgcttggtccagGGAGTTGCAACCTGCAGCTGCTGCTTACTTTGGTGAGTTGGAGAAGGCCCTTATCCATGGCACCAGTGCTGGTGCTGGTGTCGATCATGGCATGATCCAA

Basic information

species Oryza sativa
transcript LOC_Os05g37170.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G000842_T02 (Zea mays), 3'ss of exon 2
---acattcctgaaaag---ttcag-tttttatctgttcgtccatatattgcatatggctattgactaccacaggtgttgaatgctgtgctctactgcttggtccagGGAGTTGCAACCTGCAGCTGCTGCT------TACTTTGGTGAGTTGGAGAAGGCCCTT-ATCCATGGCACCAGTGCTGGTGCTGGTGTCGATCATGGCATGATCCAA
   || ||| ||||||    || || |||||||||| |   || ||||||||||||||||        |||  |||| ||||     ||| ||||||||||| |||||||||||||||||||||| ||||||      |||||||||||||||||| |||||||| |||||||||||| || |         ||| ||||| |||||||||   
tttaccttcttgaaaaaaaattaagctttttatctgctttgccttatattgcatatggctg-------ccattggtgctgaacttgctgcgctactgcttggcccagGGAGTTGCAACCTGCAGCAGCTGCTCCTTATTACTTTGGTGAGTTGGAGGAGGCCCTTTATCCATGGCACCCGTAC------ATCTGTTGATCACGGCATGATCGG-
















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|58688746|gb|CK077433.1|CK077433
EST:     TTCTCTCCTCCACCGCCGGCGGCGTTCGGCTCCATCGATCGCACGGCAAG                         GGAGTTGCAACCTGCAGCTGCTGCTTACTTTGGTGAGTTGGAGAAGGCCCT
genomic: TTCTCTCCTCCACCGCCGGCGGCGTTCGGCTCCATCGATCGCACGGCAAGgtacggctcc ... cttggtccagGGAGTTGCAACCTGCAGCTGCTGCTTACTTTGGTGAGTTGGAGAAGGCCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatggctattgactaccacaggtgttgaatgctgtgctctactgcttggtccagGGAGTTGCAACCTGCAGCTGCTGCTTACTTTGGTGAGTTGGAGAAGGCCCTTATCCATGGCACCAGTGCTGGTGCTGGTGTCGATCATGGCATGATCCAA
       tattgac  putative branch site (score: 2)