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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaaccatctacatcgccctccttcaggttcacagcatcctatcttctgaagcagcaaagtaggatgtgactcaaatctgttcatgaagtacctcaatgtaagctacattctgggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGCGTTCAAAACAGGACTGG

Basic information

species Physcomitrella patens
transcript PP1S424_22V6.3
intron # 4
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|208351125|gb|DC926017.1|DC926017
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|18327010|gb|BJ159011.1|BJ159011
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162273977|gb|FC450116.1|FC450116
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|19788276|gb|BQ040746.1|BQ040746
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162260191|gb|FC436326.1|FC436326
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|208382870|gb|DC928295.1|DC928295
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162278876|gb|FC454927.1|FC454927
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162236682|gb|FC413777.1|FC413777
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162273976|gb|FC450115.1|FC450115
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162259659|gb|FC436704.1|FC436704
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162263104|gb|FC440082.1|FC440082
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162270768|gb|FC446381.1|FC446381
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|100411270|gb|BY974553.1|BY974553
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162264248|gb|FC441350.1|FC441350
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162263103|gb|FC440081.1|FC440081
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162270220|gb|FC447232.1|FC447232
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162272167|gb|FC448676.1|FC448676
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162273701|gb|FC449424.1|FC449424
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162278875|gb|FC454926.1|FC454926
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162273757|gb|FC449480.1|FC449480
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|18325347|gb|BJ157343.1|BJ157343
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|67568787|gb|BJ941611.1|BJ941611
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162265463|gb|FC440789.1|FC440789
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162275819|gb|FC451380.1|FC451380
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|100362718|gb|BY947493.1|BY947493
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162265542|gb|FC441557.1|FC441557
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162272168|gb|FC448677.1|FC448677
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162263098|gb|FC440076.1|FC440076
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|18333294|gb|BJ165308.1|BJ165308
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162236681|gb|FC413776.1|FC413776
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162260192|gb|FC436327.1|FC436327
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|67691982|gb|BJ952215.1|BJ952215
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|18334976|gb|BJ166994.1|BJ166994
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162265462|gb|FC440788.1|FC440788
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162265762|gb|FC443168.1|FC443168
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|162273702|gb|FC449425.1|FC449425
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
EST: gi|208397629|gb|DC912247.1|DC912247
EST:     CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGG                         GAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC
genomic: CGACGTCGAGAAACTGGTTAAGAGGACTGGTTTTGAAGGTCTTCAATGGGgtaagcaacc ... gggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgactcaaatctgttcatgaagtacctcaatgtaagctacattctgggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGCGTTCAAAACAGGACTGG
                            aatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcaaccatctacatcgccctccttcaggttcacagcatcctatcttctgaagcagcaaagtaggatgtgactcaaatctgttcatgaagtacctcaatgtaagctacattctgggtctgcagGAGCGGTAGCTGGAGTATACGCCGGGGTCGAATACTCGTTGGAGAAGGCGCGTTCAAAACAGGACTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA