Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaagtcgtggcaaatgttcgtgattttataggtgctgcgaataggaggttcaatttgattactaatttttcacgtattactgtttcgggttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTATAGTTCAAAATGGTCTTTAGGGTATTTTTTTCCGGTAAGAAAATTTTAT

Basic information

species Physcomitrella patens
transcript PP1S352_68V6.1
intron # 14
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|162191185|gb|FC367863.1|FC367863
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|37832281|gb|BJ590293.1|BJ590293
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|162246422|gb|FC421089.1|FC421089
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|162183079|gb|FC360645.1|FC360645
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|162191186|gb|FC367864.1|FC367864
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|162166471|gb|FC343168.1|FC343168
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|162186604|gb|FC363576.1|FC363576
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|208368657|gb|DC947932.1|DC947932
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
EST: gi|67700043|gb|BJ960276.1|BJ960276
EST:     CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCAC                         CTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA
genomic: CTCACCCCACCTTATCCGAAGTTTTGGATGAGCTGTTCAAGTCTGCTCACgtaattttca ... gttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaggttcaatttgattactaatttttcacgtattactgtttcgggttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTATAGTTCAAAATGGTCTTTAGGGTATTTTTTTCCGGTAAGAAAATTTTAT
                tactaat  putative branch site (score: 1)
                                              ttcttgc  putative PPT
     ttcaatttgattacta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaaagtcgtggcaaatgttcgtgattttataggtgctgcgaataggaggttcaatttgattactaatttttcacgtattactgtttcgggttcttgcagCTTGAAGATCACGCAGTGGTGTCAGAGAAGGCAGCTGAACCAGTAGCTGTATAGTTCAAAATGGTCTTTAGGGTATTTTTTTCCGGTAAGAAAATTTTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - tgctgcg