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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTGATGCTTTGACCTATTTGGACAACAACCGAACACGCGAAGAGATTGTAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaacagtcgtgagctgttcactctacctttaagtggtcacatgatttgtagaatgatcctgttccttcgtcactcttggtgcagagtcagcttggaagcctcgatctttaaaaggagagggtaaagaagtcacacaatgtgtagtaaaggcaactgttcgatggtcgactaatgatagtattttgtgcag

Basic information

species Physcomitrella patens
transcript PP1S69_133V6.4
intron # 4
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|37833065|gb|BJ591077.1|BJ591077
EST:     GTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: GTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37834827|gb|BJ592839.1|BJ592839
EST:     TGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|67691964|gb|BJ952197.1|BJ952197
EST:     GCACAGATGNAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: GCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|67701209|gb|BJ961442.1|BJ961442
EST:     GGAGCTTAGCNAGCAG                         TGTGACCTTTTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: GGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37850286|gb|BJ608294.1|BJ608294
EST:     ACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCCGCGAATGATGGAGCAGCTTGG
genomic: ACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATA-CCCCGCGAATGATGGAGCAGCTTGG
EST: gi|208382592|gb|DC919788.1|DC919788
EST:     CGTGTGCACAGATGNAGGAGCNTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: CGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37844837|gb|BJ602845.1|BJ602845
EST:     TGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTNTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37843392|gb|BJ601400.1|BJ601400
EST:     CGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: CGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|67718243|gb|BJ968502.1|BJ968502
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTANATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100379972|gb|BY968782.1|BY968782
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|208381709|gb|DC928372.1|DC928372
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37850916|gb|BJ608924.1|BJ608924
EST:     ACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACNTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: ACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100355869|gb|BY946079.1|BY946079
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCCTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37847199|gb|BJ605207.1|BJ605207
EST:     TGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100369679|gb|BY948596.1|BY948596
EST:     AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTTAGCA-GCAG                         TGTGACCTTCTAGTAGATGT
genomic: AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTT-AGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGT
EST: gi|208349772|gb|DC905896.1|DC905896
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTANCANGCAG                         TGTGACCTTCTANTANATGTGTATACCCCGCGAATGATG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATG
EST: gi|37839648|gb|BJ597656.1|BJ597656
EST:     TGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100386330|gb|BY987997.1|BY987997
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGTAGCTTG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTG
EST: gi|100367141|gb|BY984824.1|BY984824
EST:     AGTTGCTCTCCACCTTGCGTGTGCACAGATGACGGAGCTTAGNCA-GCAG                         TGTGACCTTCTAGTAGATGTGTATA
genomic: AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAG-CAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATA
EST: gi|37839037|gb|BJ597045.1|BJ597045
EST:     TGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100360897|gb|BY965957.1|BY965957
EST:     AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGNCA-GCAG                         TGTGACCTTCTAGTAGATGT
genomic: AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAG-CAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGT
EST: gi|37827635|gb|BJ585647.1|BJ585647
EST:     TGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|162152066|gb|FC328461.1|FC328461
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCT
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCT
EST: gi|37850132|gb|BJ608140.1|BJ608140
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGGATGTGTATACCCCGCGAATGATGGAGCAGCTTGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTA-GATGTGTATACCCCGCGAATGATGGAGCAGCTTGG
EST: gi|37852445|gb|BJ610453.1|BJ610453
EST:     CGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: CGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37827636|gb|BJ585648.1|BJ585648
EST:     GCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: GCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|162278634|gb|FC455032.1|FC455032
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|162278633|gb|FC455031.1|FC455031
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100396420|gb|BY990120.1|BY990120
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|100372728|gb|BY948675.1|BY948675
EST:     AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGNCA-GCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGG
genomic: AGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAG-CAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGG
EST: gi|37822569|gb|BJ580635.1|BJ580635
EST:     GTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACNTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: GTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|208369944|gb|DC931507.1|DC931507
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTANCAGGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|208392989|gb|DC946011.1|DC946011
EST:     CGTGTGCACAGATGAAGGAGCTTAGCAGGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: CGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|67726731|gb|BJ976990.1|BJ976990
EST:     TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
EST: gi|37827314|gb|BJ585326.1|BJ585326
EST:     TGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAG                         TGTGACNTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG
genomic: TGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaac ... ttttgtgcagTGTGACCTTCTAGTAGATGTGTATACCCCGCGAATGATGGAGCAGCTTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACTGATGCTTTGACCTATTTGGACAACAACCGAACACGCGAAGAGATTGTAGTTGCTCTCCACCTTGCGTGTGCACAGATGAAGGAGCTTAGCAAGCAGgtaagcaaacagtcgtgagctgttcactctacctttaagtggtcacatgatttgtagaatgatcctgttccttcgtcactcttggtgcagagtcagcttggaagcctcgatctttaaaaggagagggtaaagaagtcacacaatgtgtagtaaaggcaactgttcgatggtcgactaatgatagtattttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG