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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCGAGTGAGTGAGAGAGAGGGGATTTTCTTCATTGTGATTTAGCTATGGCGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactacgccatgcacagcctgtggtgaccttgtgttgaatggaagattgagggtccttctgtttttgttttgtttgttttgtatttgctgtgtttggatgttgagggttggaaag

Basic information

species Physcomitrella patens
transcript PP1S46_317V6.2
intron # 1
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|18347049|gb|BJ179095.1|BJ179095
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|18349425|gb|BJ181474.1|BJ181474
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|18368862|gb|BJ200947.1|BJ200947
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|100449341|gb|CJ973640.1|CJ973640
EST:     CGCGTACGAAGAANAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|100437092|gb|BY961347.1|BY961347
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|162167971|gb|FC344909.1|FC344909
EST:     CGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
EST: gi|100446205|gb|CJ970504.1|CJ970504
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C--                         -AA--GCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggttggaaagGAATTGCAGGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCGAGTGAGTGAGAGAGAGGGGATTTTCTTCATTGTGATTTAGCTATGGCGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactacgccatgcacagcctgtggtgaccttgtgttgaatggaagattgagggtccttctgtttttgttttgtttgttttgtatttgctgtgtttggatgttgagggttggaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC