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

gttagctttactcccaacgttgtttcattccttcacatggaagtctgcacggacattcatttgaatggtcaactaacttttcaagagtggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGACCCTTGCAAGTCGATCTTTCAAAACTGGAG

Basic information

species Physcomitrella patens
transcript PP1S9_162V6.1
intron # 6
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|100447259|gb|CJ971558.1|CJ971558
EST:     ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCG                         GATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
genomic: ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCGgttagcttta ... tggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
EST: gi|208370621|gb|DC936137.1|DC936137
EST:     ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCG                         GATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGANAA-TACTANGCGA
genomic: ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCGgttagcttta ... tggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
EST: gi|67712638|gb|BJ966087.1|BJ966087
EST:     ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCG                         GATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTANGCGA
genomic: ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCGgttagcttta ... tggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
EST: gi|208353685|gb|DC949761.1|DC949761
EST:     ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCG                         GATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
genomic: ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCGgttagcttta ... tggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
EST: gi|208397201|gb|DC920581.1|DC920581
EST:     ATCAAACCGTCA-TGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCG                         GATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA
genomic: ATCAAACCGTCACTGCATCCAGTCAGATTCAGATAGAAAACAGCTCATCGgttagcttta ... tggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgcacggacattcatttgaatggtcaactaacttttcaagagtggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGACCCTTGCAAGTCGATCTTTCAAAACTGGAG
                            aactaac  putative branch site (score: 1)
            attcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagctttactcccaacgttgtttcattccttcacatggaagtctgcacggacattcatttgaatggtcaactaacttttcaagagtggcctgcagGATCATGAGCAGAAGCCAAAAATGCCACTTTCCTTGAGAAGTACTAGGCGACCCTTGCAAGTCGATCTTTCAAAACTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT