Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtcgcaaccgttgaagaactcctaacgcagaccaaatgtagggcttttgcatcgaaactttgaagataattaaccaagtgttaatggcctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTTCCTCACCGGTGTCGCAGCCAGCCCTAAATCGCATCTCCCAGGAGATCGG

Basic information

species Physcomitrella patens
transcript PP1S9_480V6.2
intron # 2
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|18355717|gb|BJ187776.1|BJ187776
EST:     GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAG                         GTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
genomic: GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAGgtttgtttga ... ctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
EST: gi|162175773|gb|FC352075.1|FC352075
EST:     GTGCGAACTATCTGGAG                         GTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
genomic: GTGCGAACTATCTGGAGgtttgtttga ... ctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
EST: gi|100385240|gb|BY950832.1|BY950832
EST:     GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAG                         GTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
genomic: GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAGgtttgtttga ... ctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
EST: gi|18350382|gb|BJ182433.1|BJ182433
EST:     GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAG                         GTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT
genomic: GTGTTGGGTGGGTCGTTTGGGTGGAGGTTCCGTGTGCGAACTATCTGGAGgtttgtttga ... ctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgcatcgaaactttgaagataattaaccaagtgttaatggcctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTTCCTCACCGGTGTCGCAGCCAGCCCTAAATCGCATCTCCCAGGAGATCGG
                                            cctctttcc  CT-rich tract
               tttgaagataattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtcgcaaccgttgaagaactcctaacgcagaccaaatgtagggcttttgcatcgaaactttgaagataattaaccaagtgttaatggcctctttccagGTTATCGAATTTAGAACTTAATAATAGACTTGATGGCGGCGCTTGCCTCTTCCTCACCGGTGTCGCAGCCAGCCCTAAATCGCATCTCCCAGGAGATCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC