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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcagaatgacatagatataatgagtatgacaactttgagaaaattggagcagatcatagttcaacacagaattttgttcctggttaatgtttttgcagGAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCCAGATTGGATTCTCCAT

Basic information

species Physcomitrella patens
transcript PP1S47_161V6.1
intron # 11
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|100365584|gb|BY966669.1|BY966669
EST:     ACCAACATTGTTTGTTGGTGTTCCTCGTGTCTTCGACAGGCTAACTACAG                         GAATTCAAGAAAAAATTGCTGCTTCAGGTAGAAT-AAAAATTGGCTCTTCC
genomic: ACCAACATTGTTTGTTGGTGTTCCTCGTGTCTTCGACAGGCTAACTACAGgtaagctcgg ... gtttttgcagGAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCC
EST: gi|162167248|gb|FC342813.1|FC342813
EST:     CCAACATTGTTTGTTGGTGTTCCTCGTGTCTTCGACAGGCTAACTACAG                         GAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCC
genomic: CCAACATTGTTTGTTGGTGTTCCTCGTGTCTTCGACAGGCTAACTACAGgtaagctcgg ... gtttttgcagGAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggagcagatcatagttcaacacagaattttgttcctggttaatgtttttgcagGAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCCAGATTGGATTCTCCAT
                                      ggttaat  putative branch site (score: 4)
                                            tgttttt  CT-rich tract
                                        ttaatgttttt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgcagaatgacatagatataatgagtatgacaactttgagaaaattggagcagatcatagttcaacacagaattttgttcctggttaatgtttttgcagGAATTCAAGAAAAAATTGCTGCTTCAGGTAGAATAAAAAATTGGCTCTTCCAGATTGGATTCTCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT