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

gtatagcaatccttttgtttcacaatttactttttaataacttgatttgaacctctttgtaatgtagctcttgtgactggaaagcttcacagcctaatccatttttcaggtgaaagttaatttctttttattctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCCAAGACTAGCTTCAAAGCCAACACTAAGGCTCTCGCTGAGAATGAAGGCG

Basic information

species Physcomitrella patens
transcript PP1S112_186V6.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 11
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 11
gtatagcaatccttttgtttcacaatttactttttaataacttgatttgaacctctttgtaatgtagctcttgtgactggaaagcttcacagcctaatccatttttcaggtgaaagttaatttctttttattctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCCAAGACTAGCTTCAAAGCCAACACTAAGGCTCTCGCTGAGAATGAAGGCG
                           || ||| |   |   | |    |  ||   | || |||     ||  ||| | ||     ||||  || |   |||  |       || |||| ||| |  ||   | |  ||||||||||| |||| |  ||  || || || || ||  |  | |||||||  ||||| |||||||| || ||||| |||||||| |||||||||||||| |
--------------------------gtattttatc-catgctaaagcaactcttcatctactgtg--ctttaggacagtaa----ccacattcttaataattcgt-------aaattaagttcctagtaaaattta-cagCCACAAGCGAGAGAAAAGGCTGATAAGGAAGGATTTGAGATAAGTGTTGTTAAGACCAGCTTCAAGGCAAACACGAAGGCTCTGGCTGAGAATGAAGGAG

upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 11
lower sequence: AT3G16950.2 (Arabidopsis thaliana), 3'ss of exon 11
gtatagcaatccttttgtttcacaatttactttttaataacttgatttgaacctctttgtaatgtagctcttgtgactggaaagcttcacagcctaatccatttttcaggtgaaagttaatttctttttattctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCCAAGACTAGCTTCAAAGCCAACACTAAGGCTCTCGCTGAGAATGAAGGCG
                                ||| ||| | |  |    || | | |  |    ||        |   ||| |||    |||  |||    ||     || |    | || | ||   ||| | ||  |||| ||||||| || |   || ||||| || || || ||||||||||||| |||||| || ||||| || ||||| ||||| || ||||| |||||||| |
----------------------------gtagttttatatcctagt----acttgtgtacagaagagggtcaaaaagaagaatgctatg-agcaaaatatgcttact--gtaactccttatgttttgacattat-tgctagCCTCAAGCAAAAGAAAAAGGCGAGAAGGAAGGATTTAAAGTTAGTGTTGTCAAGACAAGTTTCAAGGCTAACACAAAGGCCCTAGCTGAAAATGAAGGAG

upper sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 11
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatagcaatccttttgtttcacaatttactttttaataacttgatttgaacctctttgtaatgtagctcttgtgactggaaagcttcacagcctaatccatttttcaggtgaaagttaatttctttttattctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCCAAGACTAGCTTCAAAGCCAACACTAAGGCTCTCGCTGAGAATGAAGGCG
                                     |||| |   | ||  ||||| ||    | | | ||        |||  | || | ||||||  ||  ||  ||| |   |||||    ||           ||||| ||||| ||||     |  ||||||||||| |||||||| ||| | |||||||| || ||||| || ||||| ||||| || || || |||||||| |
------------------------------------gtaacct--ctagacactcttagtggattggttttta------aaaaattgca-atcctaatttatgatttcggtaatctttaatgcaattcc---------cagCCTCAAGCGAGAGAGAAAGCTGAGAAAGAGGGATTCAAAGTAAGTATCGCCAAGACAAGTTTCAAGGCAAACACAAAGGCCCTAGCCGAAAATGAAGGAG

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|208366234|gb|DC943808.1|DC943808
EST:     CAGCGGCTTGTTTCACGCACCCTGAGATCAGCATGGTCGGCTTGACTGAG                         CCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCC
genomic: CAGCGGCTTGTTTCACGCACCCTGAGATCAGCATGGTCGGCTTGACTGAGgtatagcaat ... tctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacagcctaatccatttttcaggtgaaagttaatttctttttattctctggcagCCACAAGCAAGAGCACTGGGAGAGAAAGAGGGTTTCAAAGTTAGTGTTGCCAAGACTAGCTTCAAAGCCAACACTAAGGCTCTCGCTGAGAATGAAGGCG
                                  tttctttttattctct  CT-rich tract
                        tgaaagttaatttctt  TA-rich tract