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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAGGGGTTTGAAGGGGCTAATCCTTTAGATGCAGCTGCTCTGCTCGCTGAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaatatctaatctacgctttgtggttggacatggtccacttattcgttgcaaagtttgcagtctcgtctatttataccccgagtgctggagtta...

Basic information

species Physcomitrella patens
transcript PP1S62_236V6.1
intron # 7
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|37847875|gb|BJ605883.1|BJ605883
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162253970|gb|FC430214.1|FC430214
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162202603|gb|FC378961.1|FC378961
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37825246|gb|BJ583312.1|BJ583312
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162196718|gb|FC373838.1|FC373838
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|19790576|gb|BQ041944.1|BQ041944
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37826170|gb|BJ584182.1|BJ584182
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37842259|gb|BJ600267.1|BJ600267
EST:     AGGATTGTGACGTGCTTATTCCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: AGGATTGTGACGTGCTTATT-CCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37839593|gb|BJ597601.1|BJ597601
EST:     GCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGNGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|67697002|gb|BJ957235.1|BJ957235
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37827344|gb|BJ585356.1|BJ585356
EST:     GGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37828278|gb|BJ586290.1|BJ586290
EST:     AGGATTGTGACGTGCTTATTCCNTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: AGGATTGTGACGTGCTTATTCC-TGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37852839|gb|BJ610847.1|BJ610847
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|37838997|gb|BJ597005.1|BJ597005
EST:     AGGATTGTGACGTGCTTATTCCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: AGGATTGTGACGTGCTTATT-CCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|208378444|gb|DC923080.1|DC923080
EST:     GATTGTGACGTGCTTATTCCTGCTGCCCTCNGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162162142|gb|FC337716.1|FC337716
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162151269|gb|FC327723.1|FC327723
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|67696602|gb|BJ956835.1|BJ956835
EST:     GTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
EST: gi|162196717|gb|FC373837.1|FC373837
EST:     GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGG                         TGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA
genomic: GAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaat ... tgcattgcagTGAAACTGCCAAGGATGTGAGTGCGAAGTTCATCGTAGAGGCTGCAAATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAAGGGGTTTGAAGGGGCTAATCCTTTAGATGCAGCTGCTCTGCTCGCTGAGGATTGTGACGTGCTTATTCCTGCTGCCCTCGGTGGTGTCATTAATGGgtagagaaatatctaatctacgctttgtggttggacatggtccacttattcgttgcaaagtttgcagtctcgtctatttataccccgagtgctggagtta

- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC