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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTCCCTTTCGCGATCTCCCCCTGCCACCGGCGACCCTCCGCGCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtcccaagtcctacattgcacaatgattttcacttggctcgaggagctcgacatttcattaggtttagatgatgaacatgtgtttcagggtttttt...

Basic information

species Physcomitrella patens
transcript PP1S375_10V6.1
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|100424755|gb|BY976799.1|BY976799
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67718495|gb|BJ968754.1|BJ968754
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67726318|gb|BJ976577.1|BJ976577
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67704664|gb|BJ964897.1|BJ964897
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162212775|gb|FC388575.1|FC388575
EST:     TTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: TTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67702651|gb|BJ962884.1|BJ962884
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|18360385|gb|BJ192447.1|BJ192447
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162232635|gb|FC409186.1|FC409186
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67578206|gb|BJ950373.1|BJ950373
EST:     TGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: TGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162269890|gb|FC445914.1|FC445914
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67723609|gb|BJ973868.1|BJ973868
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|15327410|gb|BI488049.1|BI488049
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67726053|gb|BJ976312.1|BJ976312
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67702832|gb|BJ963065.1|BJ963065
EST:     AAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: AAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162202640|gb|FC378985.1|FC378985
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67701868|gb|BJ962101.1|BJ962101
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67724549|gb|BJ974808.1|BJ974808
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|37837074|gb|BJ595082.1|BJ595082
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67576802|gb|BJ949626.1|BJ949626
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162222274|gb|FC397710.1|FC397710
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67727685|gb|BJ977944.1|BJ977944
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67717538|gb|BJ967797.1|BJ967797
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67709536|gb|BJ965352.1|BJ965352
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67703524|gb|BJ963757.1|BJ963757
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67719391|gb|BJ969650.1|BJ969650
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67720355|gb|BJ970614.1|BJ970614
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162232634|gb|FC409185.1|FC409185
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|37846250|gb|BJ604258.1|BJ604258
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|18365795|gb|BJ197873.1|BJ197873
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|37838525|gb|BJ596533.1|BJ596533
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67717812|gb|BJ968071.1|BJ968071
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67712841|gb|BJ966290.1|BJ966290
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|67701073|gb|BJ961306.1|BJ961306
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|162202641|gb|FC378986.1|FC378986
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
EST: gi|18357712|gb|BJ189771.1|BJ189771
EST:     GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATG                         ACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG
genomic: GCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtccca ... tgggttgcagACTGTCAAAAGGCGTAGTGGTGGTCGAAACAAGCATGGTCGTGGCCATGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTCCCTTTCGCGATCTCCCCCTGCCACCGGCGACCCTCCGCGCATCCCTTTCGTTTGTTTGTTGAGGGCGTCCCTGAAGCATTTCAACATGgtttgtcccaagtcctacattgcacaatgattttcacttggctcgaggagctcgacatttcattaggtttagatgatgaacatgtgtttcagggtttttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC