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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGAAAATCATTCGAGAACGGGATAGTTTGCACATTGCGTTGGAAGAGGAACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatgttatgtctcttaaaattcaatttttgaaaagtcggttttacaacttttctcgcctattttattgtttttcgttttaatgtaccttcggcagcgaacattgtctcttagagtcgtcataaaaacttcagcatgatgacaagaagattgtttctgtaacag

Basic information

species Physcomitrella patens
transcript PP1S427_2V6.1
intron # 22
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|37830353|gb|BJ588365.1|BJ588365
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|37826074|gb|BJ584086.1|BJ584086
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|37831042|gb|BJ589054.1|BJ589054
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|37824994|gb|BJ583060.1|BJ583060
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162162175|gb|FC337749.1|FC337749
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162199020|gb|FC372371.1|FC372371
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162154935|gb|FC331977.1|FC331977
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|161979267|gb|EE296320.1|EE296320
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162162174|gb|FC337748.1|FC337748
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162183628|gb|FC359882.1|FC359882
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162158726|gb|FC335574.1|FC335574
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|15327098|gb|BI487575.1|BI487575
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|162242567|gb|FC414971.1|FC414971
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
EST: gi|161979352|gb|EE296348.1|EE296348
EST:     AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAG                         GTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT
genomic: AACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatg ... tctgtaacagGTGGCACTGCTCCATGTCCGAGAGCTAGAATCCGAGAACCACCGCTTGCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGAAAATCATTCGAGAACGGGATAGTTTGCACATTGCGTTGGAAGAGGAACGGCAGCTTCGAGAAAGTGACGATGAAGAGATGAGAAGGAAACTGAAGgttagtcatgttatgtctcttaaaattcaatttttgaaaagtcggttttacaacttttctcgcctattttattgtttttcgttttaatgtaccttcggcagcgaacattgtctcttagagtcgtcataaaaacttcagcatgatgacaagaagattgtttctgtaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG