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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTTTACAAGTGTGCTGCCGAATTAGTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagattttggcacactctaggtctaaattagaatcgacaggttaaaacttcgtagctatttttctgaaggccagttccatcatcaaattgtaagtgagtttgtggttatgtag

Basic information

species Physcomitrella patens
transcript PP1S9_317V6.2
intron # 16
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|100398950|gb|BY990597.1|BY990597
EST:     GTTGGGCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTT
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTT
EST: gi|37827954|gb|BJ585966.1|BJ585966
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37839102|gb|BJ597110.1|BJ597110
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37829800|gb|BJ587812.1|BJ587812
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162242962|gb|FC416471.1|FC416471
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|208350253|gb|DC925729.1|DC925729
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|18340695|gb|BJ172725.1|BJ172725
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37824608|gb|BJ582674.1|BJ582674
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162160170|gb|FC337067.1|FC337067
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|15730020|gb|BI741619.1|BI741619
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162178384|gb|FC355206.1|FC355206
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37829477|gb|BJ587489.1|BJ587489
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37829305|gb|BJ587317.1|BJ587317
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37841967|gb|BJ599975.1|BJ599975
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37841095|gb|BJ599103.1|BJ599103
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37827427|gb|BJ585439.1|BJ585439
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTGTTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162252661|gb|FC428698.1|FC428698
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|18334134|gb|BJ166150.1|BJ166150
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162197253|gb|FC372540.1|FC372540
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37825373|gb|BJ583439.1|BJ583439
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|18336149|gb|BJ168171.1|BJ168171
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162197252|gb|FC372539.1|FC372539
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37828150|gb|BJ586162.1|BJ586162
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|37851908|gb|BJ609916.1|BJ609916
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
EST: gi|162174854|gb|FC351646.1|FC351646
EST:     GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTG                         GAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA
genomic: GTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagatttt ... ggttatgtagGAAACCAAGACGGAAGTTATTAAATGACAGAGTGGTGGATCTGAGTAAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTTTACAAGTGTGCTGCCGAATTAGTTGGCCCATCGCAGCTCTTCACAGTCACGAAATACCTTGTACCTTACTGgtaagattttggcacactctaggtctaaattagaatcgacaggttaaaacttcgtagctatttttctgaaggccagttccatcatcaaattgtaagtgagtttgtggttatgtag

- - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - CAGCTC