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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgacacaagccatataccgtgtcgaggttaattactagcagtatggaaacagatcagctcacctcattcccatttgagcgtcagggataatcatgaaacttgctaattgtgcgtttcctggggcttggcaacaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCATAATAAGGAG

Basic information

species Physcomitrella patens
transcript PP1S83_234V6.4
intron # 10
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|162247261|gb|FC423059.1|FC423059
EST:     CTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: CTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
EST: gi|162155634|gb|FC331559.1|FC331559
EST:     TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
EST: gi|162250016|gb|FC427117.1|FC427117
EST:     TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
EST: gi|162159567|gb|FC335745.1|FC335745
EST:     TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
EST: gi|162250017|gb|FC427118.1|FC427118
EST:     TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
EST: gi|162247262|gb|FC423060.1|FC423060
EST:     TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAG                         GGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA
genomic: TGGACTAGGTCATTTGCCGTTCACTGAAAAACAAGTCATCACGCCAACAGgtgcgacaca ... acaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataatcatgaaacttgctaattgtgcgtttcctggggcttggcaacaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCATAATAAGGAG
               tgctaat  putative branch site (score: 2)
                                            aacaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgacacaagccatataccgtgtcgaggttaattactagcagtatggaaacagatcagctcacctcattcccatttgagcgtcagggataatcatgaaacttgctaattgtgcgtttcctggggcttggcaacaatttcagGGTCAATATATGTTGGAGTAGACTTCTGCAAACAACTTTGTGGTGTCTCCATAATAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG