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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgcagcctatttcattaattatataatatacgagctaaatggttctccatgttcacaagcattaagtgtcataaacgttcaaacaagttcatttaaggatccgtgattcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTTGAACAGATGGAGCTGACACAGAATAAGCATCAAAATGCTTGGCAGCAGT

Basic information

species Physcomitrella patens
transcript PP1S51_234V6.1
intron # 6
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|208386126|gb|DC949037.1|DC949037
EST:     AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTG                         AAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
genomic: AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTGgtgcgtgcag ... tcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
EST: gi|208362835|gb|DC950635.1|DC950635
EST:     AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTG                         AAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
genomic: AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTGgtgcgtgcag ... tcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
EST: gi|162217337|gb|FC392805.1|FC392805
EST:     AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTG                         AAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
genomic: AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTGgtgcgtgcag ... tcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
EST: gi|37839714|gb|BJ597722.1|BJ597722
EST:     AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTG                         AAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT
genomic: AGGATTTGCCACCAAAATTGCGAATTAAACCTGATGATTCAGAAGATGTGgtgcgtgcag ... tcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagtgtcataaacgttcaaacaagttcatttaaggatccgtgattcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTTGAACAGATGGAGCTGACACAGAATAAGCATCAAAATGCTTGGCAGCAGT
                                            ttcttttgc  CT-rich tract
                         ttcatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgcagcctatttcattaattatataatatacgagctaaatggttctccatgttcacaagcattaagtgtcataaacgttcaaacaagttcatttaaggatccgtgattcttttgcagAAAGCGGCAAAGAAGAAAAAGATCCATGCTTTCAAGTCGAAGGCTAGGCTTGAACAGATGGAGCTGACACAGAATAAGCATCAAAATGCTTGGCAGCAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA