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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccattttgttgcagcacttggtgaattggggaagttattggattgacaatcgttgtatcttgatatgaaagggagctactgttgtcattgttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTCAAAGGAAAGTCACTTGC

Basic information

species Physcomitrella patens
transcript PP1S58_245V6.1
intron # 9
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|208374144|gb|DC945190.1|DC945190
EST:     GACTGAGAGTGTTCTGAAGTTTGGGTGGTTTCTTGTATTCTATCTG                         CTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTC
genomic: GACTGAGAGTGTTCTGAAGTTTGGGTGGTTTCTTGTATTCTATCTGgtaagtgcga ... ttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTC
EST: gi|67720746|gb|BJ971005.1|BJ971005
EST:     GACTGAGAGTGTTCTGAAGTTTGGGTGGTTTCTTGTATTCTATCTG                         CTTCATATTTCATTTTGTGTGCTAGCTGCTGTTGCTCCTCCTATCATTTTC
genomic: GACTGAGAGTGTTCTGAAGTTTGGGTGGTTTCTTGTATTCTATCTGgtaagtgcga ... ttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTC
EST: gi|208350640|gb|DC926289.1|DC926289
EST:     GACTGAGAGTGTTCTGAAGTNTGGGTGGTTTCTTGTATTCTATCTG                         CTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTC
genomic: GACTGAGAGTGTTCTGAAGTTTGGGTGGTTTCTTGTATTCTATCTGgtaagtgcga ... ttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatcgttgtatcttgatatgaaagggagctactgttgtcattgttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTCAAAGGAAAGTCACTTGC
                                          ttgtttt  CT-rich tract
                 atatgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccattttgttgcagcacttggtgaattggggaagttattggattgacaatcgttgtatcttgatatgaaagggagctactgttgtcattgttttgtgcagCTTCATATTTCATTTTGTGTGTTAGCTGCTGTTGCTCCTCCTATCATTTTCAAAGGAAAGTCACTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - tgttgca