Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacacgtttagttgggtaatggaaaccattgtcggcactccacataatttcaatctcttttcaggagctttaacccacttttcattctcaatcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTGGTGCGTGACAAGGAAATCTGGATCACCACGGACTACACTCACTTGGGAG

Basic information

species Physcomitrella patens
transcript PP1S124_70V6.2
intron # 2
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|18326078|gb|BJ158077.1|BJ158077
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCA
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCA
EST: gi|22492181|gb|BU052104.1|BU052104
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
EST: gi|18357561|gb|BJ189620.1|BJ189620
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
EST: gi|18343444|gb|BJ175482.1|BJ175482
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
EST: gi|18343539|gb|BJ175577.1|BJ175577
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCNACTG
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
EST: gi|18352916|gb|BJ184971.1|BJ184971
EST:     AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAG                         GGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG
genomic: AGGCCTGCCTAAACACTCAAACGATGTGTGCAGTTCTTCTGGATACCAAGgttcaaacat ... atcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttcaatctcttttcaggagctttaacccacttttcattctcaatcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTGGTGCGTGACAAGGAAATCTGGATCACCACGGACTACACTCACTTGGGAG
                      ctttaac  putative branch site (score: 3)
                                 ttttcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacacgtttagttgggtaatggaaaccattgtcggcactccacataatttcaatctcttttcaggagctttaacccacttttcattctcaatcatgatagGGACCGGAAATTAGAACAGGCCAGTTGGCCTCTGGAAAACCTATCCAACTGGTGCGTGACAAGGAAATCTGGATCACCACGGACTACACTCACTTGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA