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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atctaggagtcatcttattggaaatttcagattttacagttcactccttgctcagttactggcttctgatattgttgtattacgatcgaatttagattagGCGCAAGATGAGGGAAATTATGACCAAGGAAGCCCAGAGTTGCGACTTAAAGGAGTTGGTTGGCAAGTTTATTCCCGAAGCCATTGGAAAGGAAATTGAA

Basic information

species Physcomitrella patens
transcript PP1S92_47V6.2
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|7583567|gb|AW700048.1|AW700048
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|7287204|gb|AW599691.1|AW599691
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|37826625|gb|BJ584637.1|BJ584637
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|37844503|gb|BJ602511.1|BJ602511
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|37847269|gb|BJ605277.1|BJ605277
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|7583603|gb|AW699512.1|AW699512
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|162261198|gb|FC437215.1|FC437215
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|37851788|gb|BJ609796.1|BJ609796
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|7584076|gb|AW699974.1|AW699974
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|15261274|gb|BI436584.1|BI436584
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|15326916|gb|BI487299.1|BI487299
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208360419|gb|DC950032.1|DC950032
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|67694711|gb|BJ954944.1|BJ954944
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|37826206|gb|BJ584218.1|BJ584218
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|19777641|gb|BQ039208.1|BQ039208
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|19788665|gb|BQ040844.1|BQ040844
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         GCGCAAGATGAGGGAAATTATGACCAAGGAAGCCC
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattagGCGCAAGATGAGGGAAATTATGACCAAGGAAGCCC
EST: gi|162217884|gb|FC393880.1|FC393880
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAG                         A
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGgtttgcactc ... tttagattag-
EST: gi|7584167|gb|AW700065.1|AW700065
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga
EST: gi|7583183|gb|AW699347.1|AW699347
EST:     CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTCAGATTAG                     
genomic: CGAACCAGATTAAGAAGACTTGCTACGCTCAAAGCAGCCAGATCCGTC-----AGgtttgcactc ... tttaga


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgctcagttactggcttctgatattgttgtattacgatcgaatttagattagGCGCAAGATGAGGGAAATTATGACCAAGGAAGCCCAGAGTTGCGACTTAAAGGAGTTGGTTGGCAAGTTTATTCCCGAAGCCATTGGAAAGGAAATTGAA
                  ttctgat  putative branch site (score: 3)
                       atattgttgtatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atctaggagtcatcttattggaaatttcagattttacagttcactccttgctcagttactggcttctgatattgttgtattacgatcgaatttagattagGCGCAAGATGAGGGAAATTATGACCAAGGAAGCCCAGAGTTGCGACTTAAAGGAGTTGGTTGGCAAGTTTATTCCCGAAGCCATTGGAAAGGAAATTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA