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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATTGCCCTTTCCACTGACCACAAACCAAATCGATCGGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgttcagttctatccgagtgcagctcagttttatataacaatgcgtagcttatatacattcaacttccacacacacacacacacacacacaca...

Basic information

species Physcomitrella patens
transcript PP1S174_123V6.1
intron # 5
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|208395056|gb|DC920469.1|DC920469
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208378846|gb|DC927548.1|DC927548
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208396538|gb|DC915850.1|DC915850
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208366958|gb|DC951445.1|DC951445
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208352848|gb|DC917812.1|DC917812
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|162254449|gb|FC430662.1|FC430662
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208397850|gb|DC916171.1|DC916171
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208354531|gb|DC953881.1|DC953881
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208386007|gb|DC956523.1|DC956523
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|100412818|gb|BY992451.1|BY992451
EST:     GATGAACGACAACGCATTGAANAAGCTGGGAG-AGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GATGAACGACAACGCATTGAAAAAGCTGG-AGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208364824|gb|DC957875.1|DC957875
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|37852052|gb|BJ610060.1|BJ610060
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208354285|gb|DC957463.1|DC957463
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|100404154|gb|BY955282.1|BY955282
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|37834276|gb|BJ592288.1|BJ592288
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|208361054|gb|DC946687.1|DC946687
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
EST: gi|37832174|gb|BJ590186.1|BJ590186
EST:     GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTG                         GCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC
genomic: GGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgt ... gtttgtccagGCACTTGGCGTGTAGGTGGCGTTCTTGCAGTCTCTCGGGCGTTTGGTGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGATTGCCCTTTCCACTGACCACAAACCAAATCGATCGGATGAACGACAACGCATTGAAAAAGCTGGAGGAGTGGTCATGTGGTCTGgtgagtatgttcagttctatccgagtgcagctcagttttatataacaatgcgtagcttatatacattcaacttccacacacacacacacacacacacaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG