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

gtatctgcttttacaaatgacaccgttacgagggtttatttttttcgactcttgcgttttaaatgggatatattcttacttgtatcgaaagttgtgaaatgggtcttgtttaaaggtgagtataagcacgtaattcacttgttgtgtgctctattatctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTTTACCTAGCTGCTGCCATTTGGGCAGTTG

Basic information

species Physcomitrella patens
transcript PP1S61_45V6.1
intron # 12
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|162150334|gb|FC326606.1|FC326606
EST:     TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
EST: gi|162269084|gb|FC444952.1|FC444952
EST:     TACATGTTTTTGGAGATGTGCCTTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTTACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
EST: gi|162269083|gb|FC444951.1|FC444951
EST:     TACATGTTTTTGGAGATGTGCCTTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
EST: gi|162266670|gb|FC442017.1|FC442017
EST:     TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
EST: gi|162266669|gb|FC442016.1|FC442016
EST:     TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
EST: gi|162280232|gb|FC456249.1|FC456249
EST:     TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAG                         GATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT
genomic: TACATGTTTTTGGAGATGTGCCGTCAGCTCCTCTTGTAGGCTTCTTTCAGgtatctgctt ... tctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaggtgagtataagcacgtaattcacttgttgtgtgctctattatctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTTTACCTAGCTGCTGCCATTTGGGCAGTTG
                                        tattatctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatctgcttttacaaatgacaccgttacgagggtttatttttttcgactcttgcgttttaaatgggatatattcttacttgtatcgaaagttgtgaaatgggtcttgtttaaaggtgagtataagcacgtaattcacttgttgtgtgctctattatctatcacagGATTGGGTTCAAAATTGGCGCTTGACGTGCCTCATTTTAACATCCATATTTTACCTAGCTGCTGCCATTTGGGCAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC