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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgaccttaatcttctgaccctctagaccagacccgtccattccaggcttttgtggtttactggactggtttctgaatcaaacctcaatatgtcttatcccttgtgttgaaatattgttgtcattctaatgctccaattacatgctaagaatccacggatgtattccttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTGAGTCTCATATAATATTTTTGAACCTTATATCG

Basic information

species Physcomitrella patens
transcript PP1S83_234V6.1
intron # 13
splice site 3'
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|162247261|gb|FC423059.1|FC423059
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162250016|gb|FC427117.1|FC427117
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|18338563|gb|BJ170587.1|BJ170587
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|37826149|gb|BJ584161.1|BJ584161
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162154986|gb|FC331404.1|FC331404
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCGTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162159567|gb|FC335745.1|FC335745
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162250017|gb|FC427118.1|FC427118
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162247262|gb|FC423060.1|FC423060
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|162159566|gb|FC335744.1|FC335744
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
EST: gi|37837126|gb|BJ595134.1|BJ595134
EST:     TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAG                         GAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG
genomic: TGATATAGCCGATCGGCATGTTCTACTTATGGACCCTATTTTGGGAACAGgttcgacctt ... cttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattctaatgctccaattacatgctaagaatccacggatgtattccttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTGAGTCTCATATAATATTTTTGAACCTTATATCG
  ttctaat  putative branch site (score: 2)
                                          ttccttatt  putative PPT
              aattacat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgaccttaatcttctgaccctctagaccagacccgtccattccaggcttttgtggtttactggactggtttctgaatcaaacctcaatatgtcttatcccttgtgttgaaatattgttgtcattctaatgctccaattacatgctaagaatccacggatgtattccttattgtagGAAATTCGGCTATTCAAGCTATATTGTTGCTACTTCAGAAAGGAGTACCTGAGTCTCATATAATATTTTTGAACCTTATATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG