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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGTGGATTCCGATGCTGCAAAAAAACTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcgaattcgttttgtagcactgcctctgatttatacgggtcaactaattccagcaataattttctagaaaaaacgatgcatgtaatcactgcttagtgtgtgcttatctttctttttccaattgctgcattggtcacaactctatacattctgctggctcag

Basic information

species Physcomitrella patens
transcript PP1S168_70V6.1
intron # 16
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|162267296|gb|FC442084.1|FC442084
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193825|gb|FC371300.1|FC371300
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|208400781|gb|DC925061.1|DC925061
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162223683|gb|FC399456.1|FC399456
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162259443|gb|FC434954.1|FC434954
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193558|gb|FC370461.1|FC370461
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162162824|gb|FC338086.1|FC338086
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162193826|gb|FC371301.1|FC371301
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162164263|gb|FC342078.1|FC342078
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162259444|gb|FC434955.1|FC434955
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162200465|gb|FC376126.1|FC376126
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37848361|gb|BJ606369.1|BJ606369
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162150597|gb|FC326453.1|FC326453
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162150598|gb|FC326454.1|FC326454
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37846517|gb|BJ604525.1|BJ604525
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37840790|gb|BJ598798.1|BJ598798
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162189353|gb|FC366511.1|FC366511
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162192557|gb|FC370604.1|FC370604
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37845541|gb|BJ603549.1|BJ603549
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37852890|gb|BJ610898.1|BJ610898
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162169785|gb|FC345322.1|FC345322
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162236018|gb|FC412177.1|FC412177
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37851537|gb|BJ609545.1|BJ609545
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162192556|gb|FC370603.1|FC370603
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162236017|gb|FC412176.1|FC412176
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37838353|gb|BJ596361.1|BJ596361
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37838320|gb|BJ596328.1|BJ596328
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|37825076|gb|BJ583142.1|BJ583142
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|208368987|gb|DC955072.1|DC955072
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCCGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162181556|gb|FC358170.1|FC358170
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
EST: gi|162200466|gb|FC376127.1|FC376127
EST:     CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAG                         TATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA
genomic: CTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcg ... gctggctcagTATGATCAAGAAGATCAGACCAGATGTTGCTGAGGTTCAAGAAGCAGACGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACGTGGATTCCGATGCTGCAAAAAAACTTATGGAGAATCTTGTTGAGCTCCAATCAAATCTGGATGATGTGAACAGgtaagtttcgaattcgttttgtagcactgcctctgatttatacgggtcaactaattccagcaataattttctagaaaaaacgatgcatgtaatcactgcttagtgtgtgcttatctttctttttccaattgctgcattggtcacaactctatacattctgctggctcag

- - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - GGAGAA