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

gtatattgcatctcttgtattgctgttaaaacaattagatctttctgacactgaatatacagGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGT

Basic information

species Oryza sativa
transcript LOC_Os09g19734.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g19734.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G022837_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------------------------------------------------gtatattgc-atctcttgtattgctgttaaaacaattagatctttctgacactgaatatacagGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGT
                                                                                           || ||| |   | |||| ||||   ||      |||    || | | |  || | ||| |||| ||||||||||||||||||||| ||||| ||||||||||| | ||||||||| ||||| |||||||| 
gtctgcatgctttctcaaatgcttactgtgttcctgagggccaaaatgcttatcaattctgcattgacatttgcattgacatttctgaaaatacattactgacacttgcattgacatttg---cattgacactctgtaat-ctaactatgcagGCTGAGGGCCAAAATGCTTATCAATTCTGCATACAGCCACCGGGTGCTCCTGCGTTTGTCGGAAATAGC

upper sequence: LOC_Os09g19734.2 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv17s0000g05750.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------gtatattgcatctcttgtattgctgttaaaacaattagatctttctgacactgaatatacagGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGT
                                      |    ||| |  ||||| | ||| |||  |   ||     |    |   |  | | ||||||||||| ||||||||||| ||||||| | | |||||||||||||| || |||||| |||| || | |
gtattttttttaatcttagtgtcatattcagtggaaacttcaacatgttctgtatagttgtgaaattagcaagcatgattgacctaagcttctgcagGTTGAGGGACAAAATGCTTACCAGTTCTTTCTTCAGCCACCTGATGCACCAGCATTTATTGGGAACACT
















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|58689202|gb|CK077889.1|CK077889
EST:     ATATTACTGATACTTGCATTGACCCTGTTGAACTGTTGGCATGTTTAAAG                         GTTGAGGGCCAAAATGCTTATCAGTTCTGCATACAGCCACCTGATGCTCCT
genomic: ATATTACTGATACTTGCATTGACCCTGTTGAACTGTTGGCATGTTTAAAGgtatattgca ... gaatatacagGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatctcttgtattgctgttaaaacaattagatctttctgacactgaatatacagGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGT
                                   ttctgac  putative branch site (score: 2)
                  ttaaaacaattagat  TA-rich tract