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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttcatgtcaaagcttgtgttgttgtgttctagctttccgctatttacagtttttgttcaacttcgtcttgctcagctggaaagcgctttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGAGTCGACAGAAGAGATTTTGAACGCAGCTGTCAAATATGCGCTGAAGCGC

Basic information

species Physcomitrella patens
transcript PP1S392_18V6.1
intron # 5
splice site 3'
intron type U2

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|67695271|gb|BJ955504.1|BJ955504
EST:     CACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: CACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|208365427|gb|DC950894.1|DC950894
EST:     GAATGGGCTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|67694858|gb|BJ955091.1|BJ955091
EST:     GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|162276812|gb|FC452494.1|FC452494
EST:     GAATGGACTTTCAGCGCGCCGTCTCCAGCCCAC-ACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGC
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGC
EST: gi|162276811|gb|FC452493.1|FC452493
EST:     CCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: CCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|37845527|gb|BJ603535.1|BJ603535
EST:     GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|162168897|gb|FC345371.1|FC345371
EST:     GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
EST: gi|18339365|gb|BJ171392.1|BJ171392
EST:     GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAG                         GGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA
genomic: GAATGGACTTTCAGCGCGCCGTCTCCAGCCCACCACAGTCTTTGTTGCAGgtagtgtaca ... ttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttacagtttttgttcaacttcgtcttgctcagctggaaagcgctttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGAGTCGACAGAAGAGATTTTGAACGCAGCTGTCAAATATGCGCTGAAGCGC
       tttttgtt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttcatgtcaaagcttgtgttgttgtgttctagctttccgctatttacagtttttgttcaacttcgtcttgctcagctggaaagcgctttgaatgcagGGGTCTGATTCCACTTCTGGCGGAAGGCTCTGCAAAGGCCACTGATTCAGAGTCGACAGAAGAGATTTTGAACGCAGCTGTCAAATATGCGCTGAAGCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC