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'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtgaggttttgtagcgagggatcgtggattctccgagaacacattctttgagtggatgtgtactgatttggaatggatcccgttcctttattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG

Basic information

species Physcomitrella patens
transcript PP1S4_12V6.1
intron # 1
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|100414742|gb|BY956841.1|BY956841
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|67718841|gb|BJ969100.1|BJ969100
EST:     GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|67571702|gb|BJ944526.1|BJ944526
EST:     CGCATTTCTAGATCCGAATACTT                         AGCTTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGA
genomic: CGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGC-TTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGA
EST: gi|100375450|gb|BY948872.1|BY948872
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18371464|gb|BJ203066.1|BJ203066
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|67568839|gb|BJ941663.1|BJ941663
EST:     ACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: ACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18354475|gb|BJ186531.1|BJ186531
EST:     TTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18348776|gb|BJ180825.1|BJ180825
EST:     GACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: GACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|208351568|gb|DC909998.1|DC909998
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|162257953|gb|FC433839.1|FC433839
EST:     CTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: CTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|67717090|gb|BJ967349.1|BJ967349
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|100437911|gb|BY961558.1|BY961558
EST:     GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18363906|gb|BJ195978.1|BJ195978
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18368891|gb|BJ200976.1|BJ200976
EST:     GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: GTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|67570443|gb|BJ943267.1|BJ943267
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
EST: gi|18347743|gb|BJ179790.1|BJ179790
EST:     TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTT                         AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT
genomic: TGTTTTCTCTGGTTGTGACACCAACGACGCATTTCTAGATCCGAATACTTgtaagttggg ... tattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgagtggatgtgtactgatttggaatggatcccgttcctttattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG
                 tactgat  putative branch site (score: 2)
                                  tcccgttcctttatt  putative PPT
                                           tttattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtgaggttttgtagcgagggatcgtggattctccgagaacacattctttgagtggatgtgtactgatttggaatggatcccgttcctttattgtgcagAGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG