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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttggcgtttggcatggcaacctactgtatggtattctaggaaccatgcactagaattctggtagggtttgtgatgttagttgggtgtgaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTGGGAATTTACCAAGAAAAGTGCGGGCTTGACAACGTGGTCATGTCCTGGG

Basic information

species Physcomitrella patens
transcript PP1S94_154V6.1
intron # 5
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|208387406|gb|DC949191.1|DC949191
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208374909|gb|DC956182.1|DC956182
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208365450|gb|DC950917.1|DC950917
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208354165|gb|DC957399.1|DC957399
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208385585|gb|DC937130.1|DC937130
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCN-TTGTGCACACCGAG                         TTGTTCA-GGACA-TCCTGA
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGA
EST: gi|208369206|gb|DC955835.1|DC955835
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|67724374|gb|BJ974633.1|BJ974633
EST:     ACACTTTCCCAGTAGGATGCGC-TTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208385576|gb|DC937121.1|DC937121
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCA
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCA
EST: gi|208354175|gb|DC957409.1|DC957409
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208370394|gb|DC931806.1|DC931806
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
EST: gi|208365296|gb|DC950767.1|DC950767
EST:     ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAG                         TTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG
genomic: ACACTTTCCCAGTAGGATGCGCTTTTGATCCCGCCATTGTGCACACCGAGgtacaatatg ... gaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgcactagaattctggtagggtttgtgatgttagttgggtgtgaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTGGGAATTTACCAAGAAAAGTGCGGGCTTGACAACGTGGTCATGTCCTGGG
        tagaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtttggcgtttggcatggcaacctactgtatggtattctaggaaccatgcactagaattctggtagggtttgtgatgttagttgggtgtgaccttgcagTTGTTCAAGGACAATCCTGACACGCATAATCCCCAATTTTCTACCAAGTTGGGAATTTACCAAGAAAAGTGCGGGCTTGACAACGTGGTCATGTCCTGGG

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