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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatttcgtagaagcgtcaaagaaatgttacgttggctattgaggcaccgttcaattgtttttgcttcaatttttacatgctgtctctgtggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG

Basic information

species Physcomitrella patens
transcript PP1S83_162V6.1
intron # 1
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|18329713|gb|BJ161719.1|BJ161719
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|208347445|gb|DC909752.1|DC909752
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18372591|gb|BJ204193.1|BJ204193
EST:     GTGCTCCTTTGCAACAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18356123|gb|BJ188182.1|BJ188182
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18354019|gb|BJ186074.1|BJ186074
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18349502|gb|BJ181551.1|BJ181551
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|162150536|gb|FC326392.1|FC326392
EST:     CTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: CTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18349065|gb|BJ181114.1|BJ181114
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
EST: gi|18345693|gb|BJ177736.1|BJ177736
EST:     GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAAC                         GGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
genomic: GTGCTCCTTTGCACCAGATTGAGAGCTTGTGCATGCGCTGTGGGGAGAACgtaagcaaca ... ggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccgttcaattgtttttgcttcaatttttacatgctgtctctgtggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG
                    ttcaatttttacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatttcgtagaagcgtcaaagaaatgttacgttggctattgaggcaccgttcaattgtttttgcttcaatttttacatgctgtctctgtggttttgcagGGAATGACACGGTTGCTCCTCACTCGCATCCCGCATTTCCGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacatgc