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

...atttgagagtgttctgctgtcgtttcatttcgatgaatatttattatgaattttaacctggttctttttaacacctatctgaaaatgttacctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAACGGTTTAGCAGGCCCTCTGCACGGGCTTGCAAATCAG

Basic information

species Physcomitrella patens
transcript PP1S37_33V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S37_33V6.2 (Physcomitrella patens), 3'ss of exon 12
lower sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 12
atttgagagtgttctgctgtcgtttcatttcgatgaatatt--tattatgaattttaacctggttct----ttttaacacctatctgaaaatgttacctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAACGGTTTAGCAGGCCCTCTGCACGGGCTTGCAAATCAG
        || |     || |   | || | |||| ||  |  | || |||| ||  |     ||||     ||       |  || |  ||||| | ||    ||||||||||||| || || ||||||||||| || |||||||||| | |||| |||||||| || || || || ||  | || ||||||
--------gtatgtatttgccacatgatcttgatgcatgataatgttttgaacttatagacatttctgatggttctgtttttggctaatgatgtttcttcacttagGTTGGGAGTGCACTTTCAGATCCATATCTTTCATTTGCTGCTGCATTGAATGGTTTAGCTGGGCCACTCCATGGTTTGGCTAATCAG
















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|162176172|gb|FC351914.1|FC351914
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|208386538|gb|DC952747.1|DC952747
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|67697462|gb|BJ957695.1|BJ957695
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|208388659|gb|DC953435.1|DC953435
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|208363044|gb|DC957985.1|DC957985
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|162152561|gb|FC328839.1|FC328839
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|208356950|gb|DC922286.1|DC922286
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|162234310|gb|FC409848.1|FC409848
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|162233299|gb|FC409849.1|FC409849
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
EST: gi|162202112|gb|FC378033.1|FC378033
EST:     TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTG                         GTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC
genomic: TGATCACGAAGGAGGCAATGTAAGCGCACACACTGTCCACTTGgtacgctatt ... cctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaattttaacctggttctttttaacacctatctgaaaatgttacctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAACGGTTTAGCAGGCCCTCTGCACGGGCTTGCAAATCAG
                    ttttaac  putative branch site (score: 2)
                                          ttacctct  putative PPT
                ttctttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttgagagtgttctgctgtcgtttcatttcgatgaatatttattatgaattttaacctggttctttttaacacctatctgaaaatgttacctctgccagGTTGGGAGTGCTCTATCGGATCCATATCTGTCTTTTGCTGCTGGAATGAACGGTTTAGCAGGCCCTCTGCACGGGCTTGCAAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA