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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatccagtaagatgtttcgtgattgctgtatatttcgtgttatggagagtctcgcttttgatttttggggatcttaacgctgatttgtgtgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAGGTGAAACCAATTTGGGAAGAGAAAAACATTCCTTACGCCGTCTGGACCC

Basic information

species Physcomitrella patens
transcript PP1S64_201V6.1
intron # 2
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|18346686|gb|BJ178731.1|BJ178731
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|208393135|gb|DC929630.1|DC929630
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|18361695|gb|BJ193762.1|BJ193762
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|18375026|gb|BJ206604.1|BJ206604
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|67718899|gb|BJ969158.1|BJ969158
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|18358905|gb|BJ190964.1|BJ190964
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|18348845|gb|BJ180894.1|BJ180894
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|18365931|gb|BJ198009.1|BJ198009
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|67702542|gb|BJ962775.1|BJ962775
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTT
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTT
EST: gi|18349894|gb|BJ181945.1|BJ181945
EST:     AGAATCCCGCTGATCTTACNGGCAATCTTTTCAACAANGGCGATAATCTG                         GATCTTTATTTGTA
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTA
EST: gi|18371857|gb|BJ203459.1|BJ203459
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|162158903|gb|FC334789.1|FC334789
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
EST: gi|100420625|gb|BY993434.1|BY993434
EST:     AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTG                         GATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG
genomic: AGAATCCCGCTGATCTTACAGGCAATCTTTTCAACAAGGGCGATAATCTGgtagttctga ... tgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagagtctcgcttttgatttttggggatcttaacgctgatttgtgtgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAGGTGAAACCAATTTGGGAAGAGAAAAACATTCCTTACGCCGTCTGGACCC
           ttttgattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatccagtaagatgtttcgtgattgctgtatatttcgtgttatggagagtctcgcttttgatttttggggatcttaacgctgatttgtgtgtgttctagGATCTTTATTTGTACATATCCGAATCATCAGAATTTACCGACTTTGGCAAGGTGAAACCAATTTGGGAAGAGAAAAACATTCCTTACGCCGTCTGGACCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - tgctgta