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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtttgtgcatgtgatctttctcaactgttgttcagttttaacctatgatcaaatgattgcctttcttgtgtaatagagcatactctgccttaaaatgtcgagtgagtggtaattaggttagggtttggactaggatttatatgcgtacaagagatcacatctgtgtattttggattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATCTCTTCAGAAGAACCTGGACGCCCGGCATCAG

Basic information

species Physcomitrella patens
transcript PP1S197_22V6.2
intron # 3
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|208359340|gb|DC939107.1|DC939107
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100443206|gb|BY981832.1|BY981832
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208393290|gb|DC942444.1|DC942444
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100367799|gb|BY984789.1|BY984789
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208392219|gb|DC929480.1|DC929480
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208377412|gb|DC927072.1|DC927072
EST:     TCTACTGGGTTCAGCATTNTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|162168953|gb|FC345635.1|FC345635
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAGATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208358314|gb|DC934535.1|DC934535
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208366765|gb|DC940079.1|DC940079
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100384610|gb|BY950600.1|BY950600
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|67717117|gb|BJ967376.1|BJ967376
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208379303|gb|DC927286.1|DC927286
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208371088|gb|DC955936.1|DC955936
EST:     AAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: AAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100442468|gb|BY963162.1|BY963162
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|162186319|gb|FC361627.1|FC361627
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208358782|gb|DC942948.1|DC942948
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100446728|gb|CJ971027.1|CJ971027
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208365808|gb|DC955439.1|DC955439
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208373759|gb|DC952722.1|DC952722
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208367768|gb|DC944014.1|DC944014
EST:     TTTACTGGGTTCAGCATTNTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208374709|gb|DC948667.1|DC948667
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|100434760|gb|BY960826.1|BY960826
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|162209736|gb|FC385670.1|FC385670
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCNGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208346662|gb|DC913308.1|DC913308
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
EST: gi|208388708|gb|DC941521.1|DC941521
EST:     TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGAT                         AACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC
genomic: TCTACTGGGTTCAGCATTCTGACTCGTGATTACTCGAAAATTCATCAGATgtgggtttgt ... gattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactaggatttatatgcgtacaagagatcacatctgtgtattttggattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATCTCTTCAGAAGAACCTGGACGCCCGGCATCAG
       atttatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtttgtgcatgtgatctttctcaactgttgttcagttttaacctatgatcaaatgattgcctttcttgtgtaatagagcatactctgccttaaaatgtcgagtgagtggtaattaggttagggtttggactaggatttatatgcgtacaagagatcacatctgtgtattttggattgctcagAACGGAGAAGTGCGTGCTGGCGTCGTCTGGATTTCAGGCGGACGTCCGATCTCTTCAGAAGAACCTGGACGCCCGGCATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC