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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagccacttcgaactggtggtgtctttgccagtgttgatgtcttacaacagtataaacttattagtattaatatttccttactcgctgactttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGGCTCAAGCGTCAACGATTAAGTGAGCCAATGATTCGCCGTCCTGATGGTC

Basic information

species Physcomitrella patens
transcript PP1S170_67V6.1
intron # 3
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|162153612|gb|FC329654.1|FC329654
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162193034|gb|FC369404.1|FC369404
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162264451|gb|FC441124.1|FC441124
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162177252|gb|FC353409.1|FC353409
EST:     CTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: CTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162158682|gb|FC335049.1|FC335049
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162171951|gb|FC349036.1|FC349036
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162181489|gb|FC358103.1|FC358103
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCACGAT                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTAATTTCTGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162199542|gb|FC373194.1|FC373194
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
EST: gi|162179210|gb|FC355675.1|FC355675
EST:     TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAG                         GATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG
genomic: TTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 17 (upstream exon), 29 (downstream exon)
Score: 7

GGCGACTGAGAGTATTGACGTTTTGGATGCCGTTGGGTCGAACATCCGGATTAACAGCCGTGGGCCGGAAGTGATGCGGATCATTCCTCGGCTTCATGAGgtctctttcg ... tttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGGCTCAAGCGTCAACGATTAAGTGAGCCAATGATTCGCCGTCCTGATGGTC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacagtataaacttattagtattaatatttccttactcgctgactttggttcagGATATTAATGAGGAGTGGATTGGAGATAAAGCAAGATTCAGTTATGATGGGCTCAAGCGTCAACGATTAAGTGAGCCAATGATTCGCCGTCCTGATGGTC
      tataaacttattagta  TA-rich tract