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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggtgtaaacgttatgactgcttcttcctgtacatgcgaaatacacatgtgcatacaacgctgaattctgatgctattctatgttgttctttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCTAGCCGATGCGA

Basic information

species Physcomitrella patens
transcript PP1S92_53V6.1
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|37834108|gb|BJ592120.1|BJ592120
EST:     TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGT                         GTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
genomic: TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGTgtaaccttct ... ttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
EST: gi|162257238|gb|FC433114.1|FC433114
EST:     TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGT                         GTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
genomic: TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGTgtaaccttct ... ttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
EST: gi|37829259|gb|BJ587271.1|BJ587271
EST:     TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGT                         GTCAAATTGCTT-GTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
genomic: TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGTgtaaccttct ... ttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
EST: gi|19784441|gb|BQ040174.1|BQ040174
EST:     TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGT                         GTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
genomic: TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGTgtaaccttct ... ttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
EST: gi|162157909|gb|FC334895.1|FC334895
EST:     TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGT                         GTGAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT
genomic: TGTTTTCAAGTGGCGACCGTTGTTGGAATGGGCCAGATCGAAGCTTACGTgtaaccttct ... ttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtgcatacaacgctgaattctgatgctattctatgttgttctttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCTAGCCGATGCGA
                    ttctgat  putative branch site (score: 3)
                                      ttgttcttt  putative PPT
                             tattctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggtgtaaacgttatgactgcttcttcctgtacatgcgaaatacacatgtgcatacaacgctgaattctgatgctattctatgttgttctttgtacacagGTCAAATTGCTTTGTGGAGTGAGAACTGAATTGAGGAATGTTGATGAACCTAGCCGATGCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - tacatgc
- - - - - - - - - - - - - - - - - - - - - -cacatgt