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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGTCTCTTTCTCGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttccgattctccctcttgaggtttcgaaatgtgtgtcccgcacgctgcatcgctgctgtttcgccgtgtggcggccgttccaacgcactactgt...

Basic information

species Physcomitrella patens
transcript PP1S41_304V6.1
intron # 1
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|37842439|gb|BJ600447.1|BJ600447
EST:     CAGCATCAGCCGCNTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162206214|gb|FC382284.1|FC382284
EST:     CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|208398384|gb|DC916467.1|DC916467
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67719834|gb|BJ970093.1|BJ970093
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|37844913|gb|BJ602921.1|BJ602921
EST:     CAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67692429|gb|BJ952662.1|BJ952662
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67569183|gb|BJ942007.1|BJ942007
EST:     CATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|19782800|gb|BQ039918.1|BQ039918
EST:     CCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67695840|gb|BJ956073.1|BJ956073
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|37822492|gb|BJ580558.1|BJ580558
EST:     CACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18328502|gb|BJ160507.1|BJ160507
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|37839676|gb|BJ597684.1|BJ597684
EST:     CACTCAGCCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAA
genomic: CACTCAG-CCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAA
EST: gi|18362382|gb|BJ194452.1|BJ194452
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18374348|gb|BJ205926.1|BJ205926
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162245640|gb|FC423323.1|FC423323
EST:     AGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: AGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18343896|gb|BJ175934.1|BJ175934
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18336730|gb|BJ168753.1|BJ168753
EST:     ACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: ACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162206556|gb|FC382925.1|FC382925
EST:     CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67572959|gb|BJ945783.1|BJ945783
EST:     CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162279100|gb|FC455439.1|FC455439
EST:     CTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|19790377|gb|BQ041841.1|BQ041841
EST:     TCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: TCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67694866|gb|BJ955099.1|BJ955099
EST:     TTCCCTCACGTCGAGCCCGCANTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: TTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67578315|gb|BJ950482.1|BJ950482
EST:     GCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: GCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162238058|gb|FC414248.1|FC414248
EST:     GTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: GTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67572468|gb|BJ945292.1|BJ945292
EST:     CATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18356295|gb|BJ188354.1|BJ188354
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|37828652|gb|BJ586664.1|BJ586664
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67728094|gb|BJ978353.1|BJ978353
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162232853|gb|FC407506.1|FC407506
EST:     CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18343290|gb|BJ175328.1|BJ175328
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|37833227|gb|BJ591239.1|BJ591239
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|18365237|gb|BJ197311.1|BJ197311
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|19782143|gb|BQ039816.1|BQ039816
EST:     CCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67696341|gb|BJ956574.1|BJ956574
EST:     CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162203716|gb|FC378591.1|FC378591
EST:     GCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: GCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|162238059|gb|FC414249.1|FC414249
EST:     GTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: GTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|19780736|gb|BQ039607.1|BQ039607
EST:     CCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: CCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|19789619|gb|BQ041413.1|BQ041413
EST:     TTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
genomic: TTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAA
EST: gi|67571525|gb|BJ944349.1|BJ944349
EST:     ATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAA
genomic: ATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCAT-Ggtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAA
EST: gi|162203717|gb|FC378592.1|FC378592
EST:     GCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATG                         GCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGAGTTCAGAA
genomic: GCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAG-GTTCAGAA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 34 (upstream exon), 35 (downstream exon)
Score: 20

ACAGTCTCTTTCTCGCAGCATCAGCCGCCTCTTTCCCTCACGTCGAGCCCGCACTCAGCCATGgtgggtttcc ... tgtatttcagGCGTCCGAAAAGAAGCAGCAGAATTTAATGCGGGAGATTAAGGTTCAGAAACTTGTTCTGAACATCTCTGTCGGAGAGAGCGGAGATCGTCTCACACGTG




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