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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgttggcaatctttcaggcttcttatgcggtgtttgttgttgagtctatcatccgaggtgcgaggatttgtgaattgaaaacaactttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAGAAGGTATGGAGGTGGAGAGGGATAAGATGACAGTGAGCGTGGTTTATCG

Basic information

species Physcomitrella patens
transcript PP1S9_381V6.2
intron # 1
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|18363725|gb|BJ195797.1|BJ195797
EST:     CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCG                         GGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
genomic: CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCGgtgagaaatt ... ttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
EST: gi|18367770|gb|BJ199853.1|BJ199853
EST:     CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCG                         GGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
genomic: CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCGgtgagaaatt ... ttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
EST: gi|100376634|gb|BY986261.1|BY986261
EST:     CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCG                         GGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
genomic: CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCGgtgagaaatt ... ttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
EST: gi|208385342|gb|DC915142.1|DC915142
EST:     CTTTGAAGGGGTGGTCTGGATCGAGGAGATAATTCGTGCTGCTAGTGTCG                         GGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
genomic: CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCGgtgagaaatt ... ttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
EST: gi|67507913|gb|BJ940788.1|BJ940788
EST:     CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCG                         GGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG
genomic: CTTTGAAGGGGTGGTCTGAATCGAGGAGATAATTCGTGCTGCTAGTGTCGgtgagaaatt ... ttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtctatcatccgaggtgcgaggatttgtgaattgaaaacaactttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAGAAGGTATGGAGGTGGAGAGGGATAAGATGACAGTGAGCGTGGTTTATCG
                                           ctttgttt  CT-rich tract
                               aattgaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttgttggcaatctttcaggcttcttatgcggtgtttgttgttgagtctatcatccgaggtgcgaggatttgtgaattgaaaacaactttgtttgcagGGTCGGGTTAGGACAGATCGGCTGTGAGATACACAGACGATTCGTGCGCAGAAGGTATGGAGGTGGAGAGGGATAAGATGACAGTGAGCGTGGTTTATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG