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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTATTAAGCGCTGTGGTCTTTGGAATTCACATCATCCGAACTGAATTTCACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaactgctccaattctgaagctctttcggtgattatttgatactagatacggccaaatttctttactcaaccttggagcttcaagttgccactgttgactccattagaaatagaatgtaatcgaaacactgctttgtcttcattgtgcag

Basic information

species Physcomitrella patens
transcript PP1S93_121V6.1
intron # 5
splice site 5'
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|162229789|gb|FC404047.1|FC404047
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|37825656|gb|BJ583722.1|BJ583722
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|37829574|gb|BJ587586.1|BJ587586
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|162229790|gb|FC404048.1|FC404048
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|162166848|gb|FC343025.1|FC343025
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|37843621|gb|BJ601629.1|BJ601629
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
EST: gi|37835632|gb|BJ593644.1|BJ593644
EST:     ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAG                         TTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA
genomic: ACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaact ... cattgtgcagTTGTTTGTGATTACTGGGAGCTCCTGCATGTGGTTCATTGCGAGCCACTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTATTAAGCGCTGTGGTCTTTGGAATTCACATCATCCGAACTGAATTTCACTCGCGTAATCATAGCACGAGTGCTGCTTTGCCTTTAATTTCTCTTCAGgtccttaactgctccaattctgaagctctttcggtgattatttgatactagatacggccaaatttctttactcaaccttggagcttcaagttgccactgttgactccattagaaatagaatgtaatcgaaacactgctttgtcttcattgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT