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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtttgtttagctcgttgtgctgtggcatcacctcaatatctgtacattttcttgccttctgtttattgtactatgaatgtaaatcacttgtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG

Basic information

species Physcomitrella patens
transcript PP1S272_13V6.5
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|67697134|gb|BJ957367.1|BJ957367
EST:     ATCTTAGCTGGAATGCA                         GCTTTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: ATCTTAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
EST: gi|67573748|gb|BJ946572.1|BJ946572
EST:     ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCA                         GCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
EST: gi|67569108|gb|BJ941932.1|BJ941932
EST:     ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCA                         GCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
EST: gi|18366564|gb|BJ198643.1|BJ198643
EST:     ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCA                         GCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: ACTTCGGGATTTTCAGCTTAGAATTGGAGTTGCATCTTAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
EST: gi|37846944|gb|BJ604952.1|BJ604952
EST:     TAGCTGGAATGCA                         GCTNTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: TAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
EST: gi|67692348|gb|BJ952581.1|BJ952581
EST:     ATCTTAGCTGGAATGCA                         GCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
genomic: ATCTTAGCTGGAATGCAgtgagtagtt ... gtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattttcttgccttctgtttattgtactatgaatgtaaatcacttgtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG
                                          cttgtcct  CT-rich tract
                 tttattgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtttgtttagctcgttgtgctgtggcatcacctcaatatctgtacattttcttgccttctgtttattgtactatgaatgtaaatcacttgtcctggcagGCTCTGATCCAGCTGTTCATTCACTCATATAATCTTTCGTCTCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT