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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTAATTGTAGCGGATCACTTAACTCCATTTGGTGGTGTGCCTTCTCAGGAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgctaccctttttcttccaacgattctttgccaaataggcattctttttgtcaaatcgtagcactggggtatcaatcgaatcgtgccgcactctg...

Basic information

species Physcomitrella patens
transcript PP1S9_37V6.3
intron # 3
splice site 5'
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|100380424|gb|BY986691.1|BY986691
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|208393082|gb|DC929577.1|DC929577
EST:     GAGGAGGCTGGTGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|208356450|gb|DC914312.1|DC914312
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|100404598|gb|BY973658.1|BY973658
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|100452754|gb|CJ975427.1|CJ975427
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|18328795|gb|BJ160801.1|BJ160801
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|162185462|gb|FC361205.1|FC361205
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|100450647|gb|CJ974368.1|CJ974368
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|100439337|gb|BY980213.1|BY980213
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|18327519|gb|BJ159522.1|BJ159522
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
EST: gi|162196408|gb|FC373554.1|FC373554
EST:     GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAAC                         GGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA
genomic: GAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgcta ... ttgtgcacagGGAATCTCCCATGATAACTTCTCCCAGGAGCCCTGGTCCCTCTATCAATGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGTAATTGTAGCGGATCACTTAACTCCATTTGGTGGTGTGCCTTCTCAGGAGGAGGCTGATGCAGCCGCACGAGAATTAAAAGCAACCTTTGTTCAAACgtgagtgctaccctttttcttccaacgattctttgccaaataggcattctttttgtcaaatcgtagcactggggtatcaatcgaatcgtgccgcactctg

- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA