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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaactaacttggaacaatcgatacagtccatattccataatttcgattacaaatgcagtactcaagatttggcttctgtttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAAGATGTTTGGTGAGTCCACTGAATCTCAGTTCACGCTGAACTTACCAGAG

Basic information

species Oryza sativa
transcript LOC_Os02g01100.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01100.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G105192_T02 (Zea mays), 3'ss of exon 5
gtaattaactaacttggaacaatcgatacagtccatattccataatttcgattacaaatgcagtactcaagatttggcttctgtttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAAGATGTTTGGTGAGTCCACTGAATCTCAGTTCACGCTGAACTTACCAGAG
     ||| || |||      ||| |||   |||||||||  |  ||||   |  ||||| ||  ||||   |||      | ||| ||||||| |||||| ||||  | ||||| ||||| ||||| || ||||||||||| || |||||||||||  ||||  | |||||||| || |||||||||||||||
----gtaattagctt------atccata--atccatattcttt--tttcccctg-aaatgtagcgctcatatttt------tttttattatcagCATTGGGCTGTCTACCATTTTATTTGCTGGTGCAGCGGTGATGGGATACAAAATGTTTGGTGAAGCCACACAGTCTCAGTTTACACTGAACTTACCAGAG

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G134888_T01 (Zea mays), 3'ss of exon 6
gtaattaactaacttggaacaatcg-atac-agtccatattccataatttcgattac---aaatgcagtactcaagatttggcttctgtttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAAGATGTTTGGTGAGTCCACTGAATCTCAGTTCACGCTGAACTTACCAGAG
||||| |  | |  ||| |  |||  | || | | || |||| |  |||   |||     ||| |||| |||||  || ||  ||||||||||| ||||||||||| ||||  |  |||||| ||| |||||||| ||||||||||| || |||||||||||  |||| || || || ||||| || ||||||||||| 
gtaatcattttaactgggatgatcccacactaatgcacattcaacgattattattgttggaaacgcagcactcac-atctgttttctgtttcttgtcagTATTGGGCTGTCTACCTTTTTGTATGCTGGTGCTGCAGTGATGGGATACAAAATGTTTGGTGAAGCCACAGAGTCCCAATTCACACTCAACTTACCAGAT
















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|88728967|gb|CI752477.1|CI752477
EST:     TATTCTTCTCTGAAGGATCGCAACCAGTTTCCTTCTATTCTTTTCACTTG                         TATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
genomic: TATTCTTCTCTGAAGAATCGCAACCAGTTTCCTTCTATTCTTTTCACTTGgtaattaact ... ttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
EST: gi|29678444|gb|CB674719.1|CB674719
EST:     TATTCTTCTCTGAAGAATCGCAACCAGTTTCCTTCTATTCTTTTCACTTG                         TATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
genomic: TATTCTTCTCTGAAGAATCGCAACCAGTTTCCTTCTATTCTTTTCACTTGgtaattaact ... ttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
EST: gi|87006659|gb|CI295042.1|CI295042
EST:     TATTCTTCTCTGAAGAATCGCAACCAGTTTCCTTCTATTCTTTTCACTTG                         TATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
genomic: TATTCTTCTCTGAAGAATCGCAACCAGTTTCCTTCTATTCTTTTCACTTGgtaattaact ... ttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
EST: gi|86498766|gb|CI141399.1|CI141399
EST:     TCTATTCTTTTCACTGG                         TATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
genomic: TCTATTCTTTTCACTTGgtaattaact ... ttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAA
EST: gi|29663318|gb|CB659593.1|CB659593
EST:     CAACCAGTTTCCTTCTATTCTTTTCAC-TG                         TATGGGGNTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATA
genomic: CAACCAGTTTCCTTCTATTCTTTTCACTTGgtaattaact ... ttcttatcagTATTGGG-TTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccataatttcgattacaaatgcagtactcaagatttggcttctgtttcttatcagTATTGGGTTGTCCTCAATTTTGTTTGCCGGTGCTGCTGTGATGGGATATAAGATGTTTGGTGAGTCCACTGAATCTCAGTTCACGCTGAACTTACCAGAG
                                      cttctgtttcttatc  CT-rich tract
           attacaaat  TA-rich tract