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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattttcagtattttattttatttttatatttttggtgttttgcgacgattcatttgttctaatatcgatctctttttttcttttttttgatggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG

Basic information

species Physcomitrella patens
transcript PP1S159_2V6.1
intron # 12
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|208377543|gb|DC922646.1|DC922646
EST:     AAGTTGCGGTAGCTCTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162279998|gb|FC456184.1|FC456184
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162255997|gb|FC431761.1|FC431761
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|208346091|gb|DC917044.1|DC917044
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|208386288|gb|DC953001.1|DC953001
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|37836145|gb|BJ594153.1|BJ594153
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|67693400|gb|BJ953633.1|BJ953633
EST:     AGTTGCGGTAGCTTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AGTTGCGGTAGC-TTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162174015|gb|FC350530.1|FC350530
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACCAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162194113|gb|FC370288.1|FC370288
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|37832920|gb|BJ590932.1|BJ590932
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162164026|gb|FC339925.1|FC339925
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|162279999|gb|FC456185.1|FC456185
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
EST: gi|67727775|gb|BJ978034.1|BJ978034
EST:     AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGAT                         TGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
genomic: AAGTTGCGGTAGCTTTCCAGAACCCAAAAGTCCAGGCTGCTATTATGGATgtaagttgtg ... atggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgattcatttgttctaatatcgatctctttttttcttttttttgatggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG
                        tctctttttttctttt  CT-rich tract
                       atctctttttttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattttcagtattttattttatttttatatttttggtgttttgcgacgattcatttgttctaatatcgatctctttttttcttttttttgatggcttcagTGCTCAACAAATCCATTGAATATTACTAAGTATCAGAATGACAAGGAG

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