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'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGATCCTTTTAAATACCCCTCTACGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcatttttgctatttttccatttgcttgttcaccttattgtcgcactttaatcgtttcgctcttgacatttttggtttttccatatcctcgtca...

Basic information

species Physcomitrella patens
transcript PP1S206_101V6.1
intron # 23
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|162194651|gb|FC370042.1|FC370042
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|162190582|gb|FC366220.1|FC366220
EST:     GCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: GCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|162194652|gb|FC370043.1|FC370043
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|37821267|gb|BJ579333.1|BJ579333
EST:     CTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|67694589|gb|BJ954822.1|BJ954822
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|37826747|gb|BJ584759.1|BJ584759
EST:     CTGGCATGAAAGATATGTCGACGAAATCAGAGTCACNTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|162271612|gb|FC447497.1|FC447497
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|37833104|gb|BJ591116.1|BJ591116
EST:     GGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: GGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|162244734|gb|FC423479.1|FC423479
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
EST: gi|37820936|gb|BJ579002.1|BJ579002
EST:     CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAG                         ACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG
genomic: CGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCG

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: 22 (upstream exon), 30 (downstream exon)
Score: 4

GAGGATCCTTTTAAATACCCCTCTACGGCTACTTCTGGCATGAAAGATATGTCGACGAAATCAGAGTCACCTAAGgtagcatcat ... tctgattcagACATCTGGACGGAAGTTTACTACATCGGCAAGGAATGATTCAATGAACTCGGATAGTACTACTCGAGATTCTCCTCGAATGAGTTTCGATGCGGGTAGTG




<











<


<