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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actagtcacgatttagccgcaccatcgttaggttcgttcgatgctggcgctctagcaaatttcatgtgcttattgtgttccatatggtctctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAGCGAGAGTTAAGCAGTGAATCGCCCCTTAAAATCTCTCTGTTTTCTTTGG

Basic information

species Physcomitrella patens
transcript PP1S53_93V6.1
intron # 23
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|162268496|gb|FC444369.1|FC444369
EST:     GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAG                         GCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
genomic: GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
EST: gi|162177080|gb|FC353133.1|FC353133
EST:     GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAG                         GCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
genomic: GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
EST: gi|162268497|gb|FC444370.1|FC444370
EST:     GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAG                         GCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
genomic: GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
EST: gi|162177081|gb|FC353134.1|FC353134
EST:     GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAG                         GCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
genomic: GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
EST: gi|37827064|gb|BJ585076.1|BJ585076
EST:     GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAG                         GCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG
genomic: GGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAG

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: 34 (upstream exon), 33 (downstream exon)
Score: 3

GGAAGACAAGACTAAAGCAAACGCAGCTGGTGCCCTCAGTAACCTTGTGAGGAACTCCAGCAGGCTCTGTGATGACATCATTTCAAAAGGAGCAATTCAGgtcttaagtc ... ctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAGCGAGAGTTAAGCAGTGAATCGCCCCTTAAAATCTCTCTGTTTTCTTTGG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcgctctagcaaatttcatgtgcttattgtgttccatatggtctctgcgtgcagGCTTTGTGTCAAGTGATTTCTGTGTGTGCAGCCGCCCCCAACAATGAGAAGCGAGAGTTAAGCAGTGAATCGCCCCTTAAAATCTCTCTGTTTTCTTTGG
                                          tctctgc  CT-rich tract
           aaatttcat  TA-rich tract