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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACAGGGAATGGCTCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatgattcactcaatcacatttcgcatagctcaagaattacgtcttttagatgtggatgttgtcctccttctaaatatagcccaactctgagat...

Basic information

species Physcomitrella patens
transcript PP1S208_169V6.1
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|67568788|gb|BJ941612.1|BJ941612
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|18338596|gb|BJ170620.1|BJ170620
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|67574172|gb|BJ946996.1|BJ946996
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|162253081|gb|FC428913.1|FC428913
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|67697570|gb|BJ957803.1|BJ957803
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|162253082|gb|FC428914.1|FC428914
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|208394485|gb|DC953524.1|DC953524
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|162251498|gb|FC425566.1|FC425566
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
EST: gi|162251499|gb|FC425567.1|FC425567
EST:     TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAG                         ATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA
genomic: TCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatg ... tggtgtgcagATCAGCTTCGATTCGCAGTTATGGATGCAATATGTAGAAGCGATAAACGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACAGGGAATGGCTCTGAACAAGGGCATGAACCTGAACTCTACAGAGGAAGAACAAGAAGCAGgttagtgatgattcactcaatcacatttcgcatagctcaagaattacgtcttttagatgtggatgttgtcctccttctaaatatagcccaactctgagat

- - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC