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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctccttagtccaacatatgaactggttctgcagactcaaccctgtacggcactaagtatgcgtataatagctgaattttggtgtgtaaactgatgatggtgttgtccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGATGCGAAGTCCATCTTAGAG

Basic information

species Physcomitrella patens
transcript PP1S98_98V6.3
intron # 8
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|37826808|gb|BJ584820.1|BJ584820
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
EST: gi|162279490|gb|FC455606.1|FC455606
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
EST: gi|162279489|gb|FC455605.1|FC455605
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
EST: gi|162245725|gb|FC420743.1|FC420743
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
EST: gi|162227714|gb|FC402668.1|FC402668
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
EST: gi|162227713|gb|FC402667.1|FC402667
EST:     ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTG                         ATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT
genomic: ATTCAAGATTGCAGCAATTTCACCATCGAGATGGGCGAATACACTGgtatgctcct ... tccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgtataatagctgaattttggtgtgtaaactgatgatggtgttgtccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGATGCGAAGTCCATCTTAGAG
                            aactgat  putative branch site (score: 3)
                                          ttgtcctt  putative PPT
            tgaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctccttagtccaacatatgaactggttctgcagactcaaccctgtacggcactaagtatgcgtataatagctgaattttggtgtgtaaactgatgatggtgttgtccttgccagATTGGAGCTGCCAAGTCCTATGAAATTCTTTGCAAGACTTTTGATCCTGATGCGAAGTCCATCTTAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA