Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGTGAAGTTGCAAAAATAACATGCAAGCCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgctatttctcctatgcgatgcaaatttgagttcctggtgtctataattgaatcagctttgtctttgcag

Basic information

species Oryza sativa
transcript LOC_Os05g38370.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g38370.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA11G34120.1 (Glycine max), 5'ss of exon 4
GTTGGTGAAGTTGCAAAAATAACATGCAAGCCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgt-ctgttgctatttctc--ctatgcgat-gcaaatttgagttcctggtgtctataattgaat-cagctttgtctttgcag-------------------
||||| ||||||||||||||||| |||||||||||||| ||||| || |||||||| || || ||||| ||||| ||  ||| || ||   ||  | |   |||  | | | |||  | | |     |     ||  |  ||   | | | |  |    |                    
GTTGGAGAAGTTGCAAAAATAACTTGCAAGCCAGAATATGCATATGGCAGTGCAGGATCTCCTCCAGATATTCCTCCAGAgtactattctcatgccacaattatttgtttggaaacataattatgaagcaaaaatgttcaaaaataacctgggatacaaattctactagtgttctaatta

upper sequence: LOC_Os05g38370.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G04170.1 (Glycine max), 5'ss of exon 4
GTTGGTGAAGTTGCAAAAATAACATGCAAGCCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgt-ctgtt-----gctatttctcctatgcg---atgcaaatttgagttcctggtgtctataattgaatcagctttgt---ctttgcag-------------
 |||| ||||||||||||||||| |||||||||||||| ||||| || |||||||| || || ||||| ||||| ||  ||| |||||     || |||  |  | |  |   |   || | |||         ||  | |  | || | |   |      | | | |             
-TTGGAGAAGTTGCAAAAATAACTTGCAAGCCAGAATATGCATATGGTAGTGCAGGATCTCCTCCAGATATTCCTCCAGAGtactgttctcatgccattgattttgtttggaaacataattatgaaacaaaaaagttcaaatatcaacctgggatacaaattctactggtgttctaattat

upper sequence: LOC_Os05g38370.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT3G55520.1 (Arabidopsis thaliana), 5'ss of exon 4
GTTGGTGAAGTTGCAAAAATAACATGCAAGCCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgct------atttctcctatgcgatgcaaa----tttgag------ttcctggtgtctataattgaatcagctttgtctttgcag
||||| |||||||||||||| ||||| ||||||||||| || |||||||| || ||||| || || || || |||||  ||| ||||         | ||||   ||    | |||     | |||       ||  | || | | |||||||      || ||  ||||||
GTTGGAGAAGTTGCAAAAATTACATGTAAGCCAGAATATGCTTACGGAAGAGCCGGGTCTCCTCCCGACATCCCACCTGAgtatgttatgttccaaacttcttgcatctcgttcaagggagtgtgacagttttttttttgtttttgtaattgagatt-tttggtaattgcag

upper sequence: LOC_Os05g38370.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv13s0019g01900.t01 (Vitis vinifera), 5'ss of exon 4
GTTGGTGAAGTTGCAAAAATAACATGCAAGCCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgctatttctcctatgcgatgcaaatttgagttcctggtgtctataattgaatcagctttgtctttgcag----------------------------
||||| || ||||||||||| || ||||||||||| ||||||||||||  ||| || || || ||||| || ||  |  |||    |  |   | |||| |    ||  | | | ||  |       | | |||| ||| |  | ||| |  | ||                            
GTTGGGGAGGTTGCAAAAATCACTTGCAAGCCAGAGTACGCATACGGAGCTGCTGGTTCTCCACCAGATATCCCTGCAGAgtaatatttttactatcctgtctcctgtcattgttagaacacaa--gcca-aatttaatta-ttctgtttaagtagaagtaaaacataagatgcccaagcattg

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|88411482|gb|CI519006.1|CI519006
EST:     CCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAA                         TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGG
genomic: CCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgct ... gtctttgcagTGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGG
EST: gi|58670906|gb|CK059592.1|CK059592
EST:     CCAGAATACGCATACGGAAGTGCAGGGTCACCGCCAGAGATTCCACCCAA                         TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGG
genomic: CCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgct ... gtctttgcagTGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGG
EST: gi|58676992|gb|CK065679.1|CK065679
EST:     CCAGAATACGCATACGGAAGTGCAGGGTCACCGCCAGAGATTCCACCCAA                         TGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGG
genomic: CCAGAATACGCATACGGAAGTGCAGGGTCGCCGCCAGAGATTCCACCCAAgtctgttgct ... gtctttgcagTGCAACACTCATTTTTGAGGTGGAGTTAGTGGCTTGTAGGCCTAGGAAAGG