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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttataccatgcctgcggataagcttggctgaaaccaacgctcttcaatgtcacgtttacggcttcaactcgctctcctcattgagatattttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAGCTCAG

Basic information

species Physcomitrella patens
transcript PP1S219_94V6.4
intron # 7
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|208397534|gb|DC916404.1|DC916404
EST:     GTCACGATNGCATA-NTCGAGNAGATG                         G-TTGATCATGNATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162270289|gb|FC447301.1|FC447301
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162166751|gb|FC342720.1|FC342720
EST:     TTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: TTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162152577|gb|FC328855.1|FC328855
EST:     CGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: CGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162250292|gb|FC425946.1|FC425946
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTTGCA-GCAGGCCGTA
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTT-GCAAGCAGGCCGTA
EST: gi|162166620|gb|FC343512.1|FC343512
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|100384135|gb|BY950521.1|BY950521
EST:     CTGGACCCTTACTCTTCGGACGGTCACGATGGGCTTAGT-CGAGAGGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCCGGCC
genomic: CTGGACCCTTACTCTTCGGACGGTCACGATGG-CATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCC
EST: gi|162154906|gb|FC331948.1|FC331948
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162186428|gb|FC362984.1|FC362984
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAG
EST: gi|162166262|gb|FC342855.1|FC342855
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGTATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGT
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGT
EST: gi|162150373|gb|FC326645.1|FC326645
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162179122|gb|FC355587.1|FC355587
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|208373778|gb|DC956294.1|DC956294
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162150767|gb|FC327039.1|FC327039
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
EST: gi|162270868|gb|FC446897.1|FC446897
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTTGCA-GCAGGCCGTA
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTT-GCAAGCAGGCCGTA
EST: gi|162156546|gb|FC332154.1|FC332154
EST:     GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATG                         GTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG
genomic: GCTGGACCCTTACTCTTCGGACGGTCACGATGGCATAGTTCGAGAAGATGgtatctatcg ... tttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgtcacgtttacggcttcaactcgctctcctcattgagatattttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAGCTCAG
                                       agatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttataccatgcctgcggataagcttggctgaaaccaacgctcttcaatgtcacgtttacggcttcaactcgctctcctcattgagatattttggtgcagGTTTGATCATGAATGACGAGACAGTACATCAGCTTTGCAAGCAGGCCGTAGCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA