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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcgaacgttgtatatttgatgtttgtctagaggatattatgtcaacgtatttggtaagttctgaacgttttgttatgatatttaaatgctggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATTCCTCTGAATGAGTTGGTACCGGACACTGAAGTTTTGATTACTCAAAAAG

Basic information

species Physcomitrella patens
transcript PP1S62_94V6.2
intron # 11
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|162156039|gb|FC332206.1|FC332206
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162163259|gb|FC339377.1|FC339377
EST:     AGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|18339879|gb|BJ171906.1|BJ171906
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|208388391|gb|DC949335.1|DC949335
EST:     ATGTGGAGGATACCGAAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: ATGTGGAGGATACCG-AAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162156038|gb|FC332205.1|FC332205
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGAAGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|208362798|gb|DC950598.1|DC950598
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162172367|gb|FC348308.1|FC348308
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162251728|gb|FC427460.1|FC427460
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATC
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATC
EST: gi|37847380|gb|BJ605388.1|BJ605388
EST:     TGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: TGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162150865|gb|FC327345.1|FC327345
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|67727761|gb|BJ978020.1|BJ978020
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|18334660|gb|BJ166677.1|BJ166677
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162274343|gb|FC450311.1|FC450311
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162251335|gb|FC427977.1|FC427977
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|18335850|gb|BJ167871.1|BJ167871
EST:     AATTCNTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
EST: gi|162268968|gb|FC445460.1|FC445460
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGG
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGG
EST: gi|162153177|gb|FC329583.1|FC329583
EST:     AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAG                         ATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT
genomic: AATTCCTGCTTGATGTGGAGGATACCGAAACACAGGCTCTCGTGTTGCAGgtttgtgcaa ... tggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgtatttggtaagttctgaacgttttgttatgatatttaaatgctggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATTCCTCTGAATGAGTTGGTACCGGACACTGAAGTTTTGATTACTCAAAAAG
                       ttttgttatgatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcgaacgttgtatatttgatgtttgtctagaggatattatgtcaacgtatttggtaagttctgaacgttttgttatgatatttaaatgctggcgcacagATCATGGACGAAGACGTTGGATCAGATAAGCAAATGGGAATTGCTTCAATTCCTCTGAATGAGTTGGTACCGGACACTGAAGTTTTGATTACTCAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG