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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggttaattcctttatttgtcacagcggtcactcgttttgatgacgataatcttgttcaatctaccctattgctactgacattttgttccattttgaagCCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCAGCGGGAAGTTCTGAGAGTGTCGAGCTCTTGATAAAG

Basic information

species Physcomitrella patens
transcript PP1S6_158V6.2
intron # 7
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|162181974|gb|FC356845.1|FC356845
EST:     GCCATGATCATCCCAAAGCAGTCAAACTCCTTCTTGACAGTGGTGCTAAT                         CCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCA
genomic: GCCATGATCATCCCAAAGCAGTCAAACTCCTTCTTGACAGTGGTGCTAATgtaaagccct ... cattttgaagCCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCA
EST: gi|162157242|gb|FC332876.1|FC332876
EST:     GCCATGATCATCCCAAAGCAGTCAAACTCCTTCTTGACAGTGGTGCTAAT                         CCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCA
genomic: GCCATGATCATCCCAAAGCAGTCAAACTCCTTCTTGACAGTGGTGCTAATgtaaagccct ... cattttgaagCCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgataatcttgttcaatctaccctattgctactgacattttgttccattttgaagCCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCAGCGGGAAGTTCTGAGAGTGTCGAGCTCTTGATAAAG
                             tactgac  putative branch site (score: 1)
                                     ttttgttccatttt  CT-rich tract
                                    attttgtt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggttaattcctttatttgtcacagcggtcactcgttttgatgacgataatcttgttcaatctaccctattgctactgacattttgttccattttgaagCCTAACGGTGCTACAGATGATGATGTGACCGCTCTGGTCACGGCAGCTGCAGCGGGAAGTTCTGAGAGTGTCGAGCTCTTGATAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG