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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacaaatctcagtttgtaccaagttaatagtacgttaaataggtctgatactcaatgattgaatctgtatttgtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACCCTGATGTTGCCATGGCATTCCAGAATCCTAGAGTCCAAGCAGCGTTAAT

Basic information

species Arabidopsis thaliana
transcript AT5G16620.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16620.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G05480.1 (Glycine max), 3'ss of exon 14
------------------gtaagacaaatctcagtttgtaccaagttaatagtacgttaaataggtctgatactcaatgattgaatctgtattt--gtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACCCTGATGTTGCCATGGCATTCCAGAATCCTAGAGTCCAAGCAGCGTTAAT
                   | |   | || | |    |  | ||||    |      |    |  |||| |  |   ||| |  || | || ||    |||||||||| || ||  |||||||||||||||| || ||||| ||||  || ||||| ||||| |||||||| || ||||||||||| ||||||||  | ||
aattttatctttgataatatcatgtatattttaaagagc-ctaagtatgaatctttctttccacttctggtcttttctgaatatatttttactttcaccagATCAAATTGGGCTTTCTCCAGAAGAAGTCATTTCAAAGATTATGGCCAATCCTGAGGTTGCAATGGCATTTCAAAATCCTAGAGTTCAAGCAGCTATCAT

upper sequence: AT5G16620.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G31810.1 (Glycine max), 3'ss of exon 11
----------------gtaagacaaatctcagtttgtaccaagttaatagtacgt-taaataggtctgatactcaatgattgaatctgtattt--gtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACCCTGATGTTGCCATGGCATTCCAGAATCCTAGAGTCCAAGCAGCGTTAAT
                 ||  |   || |   |  |  || |  ||  | |   | |    |  |  | |  |   ||| |  || | || ||  | |||||||||| || ||  |||| ||||||||||| || ||||| ||||  || ||||| ||||| |||||||| || ||||||||||| ||||||||  | ||
attttatctaatgataatatcatgtatatttttaagagcctaagtatgaatctttctttccactttgggtcttttctgaatatatttttactttcgccagATCAAATTGGGCTTTCTCCCGAAGAAGTCATTTCAAAGATTATGGCCAATCCTGAAGTTGCAATGGCATTTCAAAATCCTAGAGTTCAAGCAGCTATCAT
















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|164169395|gb|ES036293.1|ES036293
EST:     ATTGAAGAATTTTGACCTGAATAGTCCTGAAGTGAAGCAACAATTCA                         ATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACC
genomic: ATTGAAGAATTTTGACCTGAATAGTCCTGAAGTGAAGCAACAATTCAgtaagacaaa ... tatttgtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACC
EST: gi|86086248|gb|DR382007.1|DR382007
EST:     TACATTGAAGAATTTTGACCTGAATAGTCCTGAAGTGAAGCAACAATTCA                         ATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACC
genomic: TACATTGAAGAATTTTGACCTGAATAGTCCTGAAGTGAAGCAACAATTCAgtaagacaaa ... tatttgtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaatagtacgttaaataggtctgatactcaatgattgaatctgtatttgtcagATCAAATAGGACTAACTCCAGAAGAAGTCATATCTAAGATCATGGAGAACCCTGATGTTGCCATGGCATTCCAGAATCCTAGAGTCCAAGCAGCGTTAAT
                    gtctgat  putative branch site (score: 4)
            ttaaata  TA-rich tract