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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgttttatagctgaataaatatgatatcaagcttgtaacatatctcttgtaattttagtatgaatgctcaggacttccgttgtcaaccattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCAGCGATACTCGAGATACCATCAAAGGACCATCCTTATGACCCAAGTCAAG

Basic information

species Physcomitrella patens
transcript PP1S50_182V6.1
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|162264736|gb|FC440303.1|FC440303
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|15261878|gb|BI437188.1|BI437188
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|67571243|gb|BJ944067.1|BJ944067
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|162237446|gb|FC412749.1|FC412749
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|67576299|gb|BJ949123.1|BJ949123
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|67699809|gb|BJ960042.1|BJ960042
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|162237445|gb|FC412748.1|FC412748
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
EST: gi|67694560|gb|BJ954793.1|BJ954793
EST:     AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATAT                         ATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA
genomic: AGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCA

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: 35 (upstream exon), 29 (downstream exon)
Score: 12

AGACCACTGTGAAGCAAATCGAGGATTCATTTAAGGAATTCACCAACCGTGAGGACATAGCTATCGTTCTCATAAGTCAATATgtgggtttcc ... cattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCAGCGATACTCGAGATACCATCAAAGGACCATCCTTATGACCCAAGTCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcttgtaattttagtatgaatgctcaggacttccgttgtcaaccattgtgcagATTGCCAACATGATTCGCTTCATGATTGATAGTTACTCTAAACCACTTCCAGCGATACTCGAGATACCATCAAAGGACCATCCTTATGACCCAAGTCAAG
       taattttagtatgaat  TA-rich tract