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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaatcgagcattatcgattcatgttgtggtcatcttttttacaaagctgttggtagaatatatttttgcttctcagttgtgagattttcttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTGGATGAGAACACGACAGTGAATCTGCTCTTACGAAATGTGGTGGATGCTA

Basic information

species Physcomitrella patens
transcript PP1S84_125V6.1
intron # 19
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|162246095|gb|FC424415.1|FC424415
EST:     AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAG                         GTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
genomic: AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAGgtatttatcc ... cttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
EST: gi|162176069|gb|FC351863.1|FC351863
EST:     AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAG                         GTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
genomic: AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAGgtatttatcc ... cttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
EST: gi|162167522|gb|FC344213.1|FC344213
EST:     AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAG                         GTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
genomic: AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAGgtatttatcc ... cttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
EST: gi|162157223|gb|FC332857.1|FC332857
EST:     AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAG                         GTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG
genomic: AGAAGGGAGCTAATGAAATTGCCACTCTTAGTCTATCTTCTTCCGTGAAGgtatttatcc ... cttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagctgttggtagaatatatttttgcttctcagttgtgagattttcttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTGGATGAGAACACGACAGTGAATCTGCTCTTACGAAATGTGGTGGATGCTA
                                            tcttgac  putative branch site (score: 3)
 ttttctt  CT-rich tract
 tagaatatattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaaatcgagcattatcgattcatgttgtggtcatcttttttacaaagctgttggtagaatatatttttgcttctcagttgtgagattttcttgacacagGTTTTAGGAGAAGGAGAAGCTGCACCTCTCGGATGTGCTCTGGGTATTGTGGATGAGAACACGACAGTGAATCTGCTCTTACGAAATGTGGTGGATGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA