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'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattgtaacctattcagacgatccatgttcggacaattatgtctattccttcaagatttcatcggcagagcgctcttttggacatttgcagttcgtagtagcactatggcagcgaagcttgaatggcttgaatgactgatcgtagaaatttattgctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCAAGATGGATCTTATT

Basic information

species Physcomitrella patens
transcript PP1S279_16V6.1
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|100384033|gb|BY950419.1|BY950419
EST:     GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAG                         GTTCCAGNNNNNNNCCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA
genomic: GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAGgtaagattgt ... ctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA
EST: gi|162168451|gb|FC344115.1|FC344115
EST:     GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAG                         GTTCCAGNNNNNNNCCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA
genomic: GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAGgtaagattgt ... ctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA
EST: gi|100384305|gb|BY969436.1|BY969436
EST:     GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAG                         GTTCCAGNNNNNNNCCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA
genomic: GGGCACACCGACATTGTGTACGGTTCGTTTGACCCGAAATTTTTCAAGAGgtaagattgt ... ctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcgaagcttgaatggcttgaatgactgatcgtagaaatttattgctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCAAGATGGATCTTATT
                       gactgat  putative branch site (score: 3)
                                             ctttgtcc  putative PPT
                                   aaatttattgcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagattgtaacctattcagacgatccatgttcggacaattatgtctattccttcaagatttcatcggcagagcgctcttttggacatttgcagttcgtagtagcactatggcagcgaagcttgaatggcttgaatgactgatcgtagaaatttattgctttgtccagGTTCCAGAAAAAAACCGACTTTCTGTTTTCACGAGTTTGGCGCCGCGACCAAGATGGATCTTATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA