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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCAAGGTGCCTGTTCCCAAGCACACAGCCAAGGCTAATTTTCAGGTGACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttctcttcttatctgttgtagtcgtgttgaagctgatgggtattgttcgaatagctcctggtgggtgtaatacattctaaggtgccgcatttattcagtcttgttgggaacgggtgctttgtgtag

Basic information

species Physcomitrella patens
transcript PP1S54_156V6.1
intron # 10
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|208351914|gb|DC917961.1|DC917961
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|37823101|gb|BJ581167.1|BJ581167
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162280314|gb|FC456331.1|FC456331
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|18341242|gb|BJ173275.1|BJ173275
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162233607|gb|FC409366.1|FC409366
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|67701419|gb|BJ961652.1|BJ961652
EST:     GAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: GAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|208354116|gb|DC957378.1|DC957378
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|18336390|gb|BJ168412.1|BJ168412
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162178166|gb|FC354884.1|FC354884
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|18334361|gb|BJ166378.1|BJ166378
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|208387404|gb|DC949189.1|DC949189
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|37840969|gb|BJ598977.1|BJ598977
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162229888|gb|FC404341.1|FC404341
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|37821184|gb|BJ579250.1|BJ579250
EST:     GCTACNGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: GCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|67694036|gb|BJ954269.1|BJ954269
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|37849854|gb|BJ607862.1|BJ607862
EST:     ACNTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162223091|gb|FC399982.1|FC399982
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162178167|gb|FC354885.1|FC354885
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|37836430|gb|BJ594438.1|BJ594438
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|18334031|gb|BJ166047.1|BJ166047
EST:     GAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: GAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|67695977|gb|BJ956210.1|BJ956210
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
EST: gi|162229889|gb|FC404342.1|FC404342
EST:     ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAA                         GGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA
genomic: ACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttct ... ctttgtgtagGGTGAGGAAGTTTCCTGGACAAACGGAACTAACAATGAGTGCCGAAGTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTCAAGGTGCCTGTTCCCAAGCACACAGCCAAGGCTAATTTTCAGGTGACCTCTGGAAGAGCAAAGTACAATGCGGCTACCGACTGCTTAGTGTGGAAgtaagcttctcttcttatctgttgtagtcgtgttgaagctgatgggtattgttcgaatagctcctggtgggtgtaatacattctaaggtgccgcatttattcagtcttgttgggaacgggtgctttgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG