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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttagtagttttctttttctttgttctcgggatatgatttttcagttaaccaggcagaaaaggatcaggattagggtatcttattcagtacattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATATCATGGGTACAGCCACGAGTTTTGGGAGTTCCTCAGATAACTGCATTGA

Basic information

species Physcomitrella patens
transcript PP1S131_74V6.1
intron # 5
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|37823592|gb|BJ581658.1|BJ581658
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|37821760|gb|BJ579826.1|BJ579826
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162251835|gb|FC426943.1|FC426943
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162265639|gb|FC441095.1|FC441095
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|208374842|gb|DC956115.1|DC956115
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162243863|gb|FC423180.1|FC423180
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|208344424|gb|DC916761.1|DC916761
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|37831001|gb|BJ589013.1|BJ589013
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162230348|gb|FC406912.1|FC406912
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAACA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162243433|gb|FC425129.1|FC425129
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162265640|gb|FC441096.1|FC441096
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|208359725|gb|DC946601.1|DC946601
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162243434|gb|FC425130.1|FC425130
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGG
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGG
EST: gi|208392191|gb|DC957270.1|DC957270
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATTAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|208357810|gb|DC918600.1|DC918600
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
EST: gi|162250854|gb|FC426898.1|FC426898
EST:     CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCT                         GTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA
genomic: CCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATA

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: 11 (upstream exon), 31 (downstream exon)
Score: 3

CCGCCCATCAGAAGAAAGGACGATTGAACTTAGTTTGATTGCTGAGAAGACCAAGCTGTCACTGGATGAAGTGGAGCATCTTTTGATCAAGAGCTTATCTgtatgtgccc ... cattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATATCATGGGTACAGCCACGAGTTTTGGGAGTTCCTCAGATAACTGCATTGA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaccaggcagaaaaggatcaggattagggtatcttattcagtacattttgcagGTACATTTGATCGAGGGTGTTATTGATCAGGTCGATGGAACAGTGCGAATATCATGGGTACAGCCACGAGTTTTGGGAGTTCCTCAGATAACTGCATTGA
 agttaac  putative branch site (score: 3)
                               tatcttatt  TA-rich tract