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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattgttactgaagaactattttgttcttgagcattatgattcatgatgtttcatttcgttccaacatttatttccgtatcaaaagttgtggttt...

Basic information

species Oryza sativa
transcript LOC_Os08g10600.3
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10600.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G155729_T03 (Zea mays), 5'ss of exon 11
GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattgttactgaagaactattttgttcttgagcattatgattcatgatgtttcatttcgttccaacatttatttccgtatcaaaagttgtggttt-----------------------------------------------------------------------------------------
 | ||| ||||||||||||||||||||||||| || ||||| ||||| |||||||||||||| ||||||| |||||| ||          |   || ||||||  | ||||   |  | ||||| |||||    |     || || |       ||  | ||   |||                                                                                         
ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCATgtgagtatttttttc------tttccttattcttgcactttatccat--tcatgttacatttaaccctttatttaatatataatgtaattgctgcattttttctggagggcctgtaacttctgttgatcttaaactaacaattaataatagaatattggcttacaattttgtccatcgtttatgcacag

upper sequence: LOC_Os08g10600.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA05G26240.2 (Glycine max), 5'ss of exon 12
GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattgttactgaagaactattttgttcttgagcattatgattcatgatgtttcatttcgttccaacatttatttccgtat--caaaagttgtggttt---
|| ||| | || ||||| ||| |||||||||| ||||||||  ||||| | |||||||| ||||||||||| || |  |  ||     |||      | | ||  |   || |||||   |  | ||| | | | |   |||  |||| | ||  |||  ||   |   |   
GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGCCTTGAAAAAGACAGCATgtatgtgtgttgccttcttcactccaacctccctgc-ccccattattca---tcctccatcttgcttct-tattgttttctgaattccaactgtgaagacattta

upper sequence: LOC_Os08g10600.3 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 5'ss of exon 12
GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATgtaagtattgttactgaagaactattttgttcttgagcattatgattcatgatgtttcatttcgttccaacatttatttccgtatcaaaagttgtggttt---
|| ||| | |||||||||||| |||||||||| || |||||  ||||| | ||||| || |||||||||| |||| | |||        ||    || | ||  |  |  |  ||  |||     ||||     || |||     || |  ||  ||  |||   |     
GTGTGCTTACATATGTTTACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAGAAAGACAGCATgtcagtaattttatccttttccttccatgcttttctgtctctttcttt-tgaaaccacattcaagacccacag--gattacccatttaacattgacctaaaat

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|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCATTTACCATTT                 
genomic: ACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAG-------CA--Tgtaagtattg ... ca