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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actacttggtttaaatgttgctgttgcttggcaccatcgaaatatctctcatttccttacagatttgtttgttctgatgtttcgttttgaactggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAGGCATTCGGCTG

Basic information

species Physcomitrella patens
transcript PP1S152_87V6.1
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|162170485|gb|FC347644.1|FC347644
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162198122|gb|FC373072.1|FC373072
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162196621|gb|FC374911.1|FC374911
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|37850442|gb|BJ608450.1|BJ608450
EST:     AGACAGTGTGACNTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162215686|gb|FC391414.1|FC391414
EST:     GCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: GCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|18332811|gb|BJ164824.1|BJ164824
EST:     CTTTCATTGANCAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: CTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162192137|gb|FC368286.1|FC368286
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162192138|gb|FC368287.1|FC368287
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162196875|gb|FC375152.1|FC375152
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCA-TGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162196876|gb|FC375153.1|FC375153
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162244980|gb|FC424938.1|FC424938
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|162170471|gb|FC347643.1|FC347643
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GT-GCAAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAA
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGC-AAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAA
EST: gi|162215700|gb|FC391415.1|FC391415
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
EST: gi|208381985|gb|DC923844.1|DC923844
EST:     AGACAGTGTGACCTCGGATGGCCTTACGACTTTCA-TGAACAGAAACTGG                         GTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG
genomic: AGACAGTGTGACCTCGGATGGCCTTACGACTTTCATTGAACAGAAACTGGgtaagttcga ... actggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctcatttccttacagatttgtttgttctgatgtttcgttttgaactggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAGGCATTCGGCTG
                 atttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actacttggtttaaatgttgctgttgcttggcaccatcgaaatatctctcatttccttacagatttgtttgttctgatgtttcgttttgaactggaatagGTGGCAAACATCATCGCTTCAAGAGGGGTTATAAGAATGTCATTGATGAAGGCATTCGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG