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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgctcccatccccatctctcctctagaaaaatgtagatgatgtattcatttctctttgctcaacccgtgaatattagggtttcttgtcagcaatctgtaaaacatgacaatcatctcagtcaattatcttttttttttttaaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCAGAGCCTACCGTTATCACTTAGACAGTGTACTAATGGCAAACAGTGGAAA

Basic information

species Physcomitrella patens
transcript PP1S168_70V6.1
intron # 18
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|162267296|gb|FC442084.1|FC442084
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162193825|gb|FC371300.1|FC371300
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|208400781|gb|DC925061.1|DC925061
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162223683|gb|FC399456.1|FC399456
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162259443|gb|FC434954.1|FC434954
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|67699423|gb|BJ959656.1|BJ959656
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162193558|gb|FC370461.1|FC370461
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|18339397|gb|BJ171424.1|BJ171424
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGNAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162162824|gb|FC338086.1|FC338086
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162193826|gb|FC371301.1|FC371301
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162164263|gb|FC342078.1|FC342078
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162200465|gb|FC376126.1|FC376126
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37848361|gb|BJ606369.1|BJ606369
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162150597|gb|FC326453.1|FC326453
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162150598|gb|FC326454.1|FC326454
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37846517|gb|BJ604525.1|BJ604525
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37840790|gb|BJ598798.1|BJ598798
EST:     NTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162155693|gb|FC331306.1|FC331306
EST:     CAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162192557|gb|FC370604.1|FC370604
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37845541|gb|BJ603549.1|BJ603549
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37852890|gb|BJ610898.1|BJ610898
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162236018|gb|FC412177.1|FC412177
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37851537|gb|BJ609545.1|BJ609545
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162192556|gb|FC370603.1|FC370603
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162236017|gb|FC412176.1|FC412176
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37838353|gb|BJ596361.1|BJ596361
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37838320|gb|BJ596328.1|BJ596328
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|37825076|gb|BJ583142.1|BJ583142
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|208368987|gb|DC955072.1|DC955072
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162181556|gb|FC358170.1|FC358170
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
EST: gi|162200466|gb|FC376127.1|FC376127
EST:     CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTT                         GTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA
genomic: CTGATCCTACCAAGACCTTCAAGCCCTCAGCTGAGGCTCTGGCACCTCTTgtaagcgctc ... aaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaaaacatgacaatcatctcagtcaattatcttttttttttttaaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCAGAGCCTACCGTTATCACTTAGACAGTGTACTAATGGCAAACAGTGGAAA
                            ttatcttttttttttt  CT-rich tract
                 atctcagtcaattatc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgctcccatccccatctctcctctagaaaaatgtagatgatgtattcatttctctttgctcaacccgtgaatattagggtttcttgtcagcaatctgtaaaacatgacaatcatctcagtcaattatcttttttttttttaaaatttcagGTGGAGGTAGCTTTGAAGCTGTCAAAGATGGAGGAATTTACGGGTCGCTCAGAGCCTACCGTTATCACTTAGACAGTGTACTAATGGCAAACAGTGGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA