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

...taaaaaccaatctccgaagttccttcatgcctgtaactctgtcttctttgggggtacattgccatttctattgtaataatacatgtttgggatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTTTTGCGCAAGAAACCAAACTTCCTTTG

Basic information

species Physcomitrella patens
transcript PP1S47_161V6.1
intron # 5
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|162149873|gb|FC326196.1|FC326196
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
EST: gi|67569282|gb|BJ942106.1|BJ942106
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
EST: gi|162194189|gb|FC371040.1|FC371040
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
EST: gi|162197005|gb|FC375217.1|FC375217
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
EST: gi|100446126|gb|CJ970425.1|CJ970425
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCA
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCA
EST: gi|162151930|gb|FC328891.1|FC328891
EST:     GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTG                         GATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT
genomic: GCTTGCAATGCGCAAAGTATTGTTTGTGTTCCTCTTTACGATACTCTTGgtatgctttc ... gatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgggggtacattgccatttctattgtaataatacatgtttgggatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTTTTGCGCAAGAAACCAAACTTCCTTTG
                  atttctattgtaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaaaccaatctccgaagttccttcatgcctgtaactctgtcttctttgggggtacattgccatttctattgtaataatacatgtttgggatgtgacagGATTGACAGCAGTGGAATATATCTTAAATCATGCAGAAATCGAAATTGCTTTTGCGCAAGAAACCAAACTTCCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA