DNA Damage Atlas

SRX1867519-END-seq-preB-RAG1-rep2

Basic Information Genome Browser Telomere Analysis Distribution Quantification Visualization Motif Analysis


Basic Information

Manual

Sample ID:   

SRR3705490


Source Project ID:   

PRJNA326246

Cell Type:   

Pre-B cell


Organism:   

Mus musculus


Genotype:   

RAG1-/-


In-situ Treatment:   

Exo VII + Exo T


Spike-in Intensity:   

no spike in


Layout:   

SINGLE


Instrument model:   

Illumina HiSeq 2000


Technique:   

END-seq


Fastqc:  



Genome Browser

Manual

  link to genome browser visualization (rDNA locus is firstly shown for human and mouse samples)



Telomere Analysis

Manual

Ratio of (G-rich strand/C-rich strand): 0.032263


Distribution

Manual




Genomic distribution Repeat distribution Top 10 simple repeats


Quantification

Manual

Peak Intensity Top 10 Peaks
Chromosome Start End Summit Intensity Strand
chr121055245811055250961055247611398.3+
chr101026684871026688631026686451226.75+
chr99542555895426319954259261275.74+
chr149091100990911592909112251378.21+
chr186510387165104243651040351237.78+
chr135326975253270153532699101771.14+
chr184801002048010734480104141146.87+
chrY4036475403727840366331210.05+
chrUn_GL4563961179012767120231273.56-
chrUn_GL4563891009711281106481164.58+
Download the Full Peak List


Overlapped Peaks from Replicates




Average Peak Intensity Top 10 Merged Peaks
Chromosome Start End Summit Intensity Strand
chr131161927401161932201161929344405.66+
chr149091100990911431909112254346.99+
chr91153506751153511111153508324156.61+
chr121055245811055249801055247614092.68+
chr135326975253270152532699104027.38+
chr124151496341515351415151373998.15+
chr99542575395426319954259263910.6+
chr184801016248010680480104143576.02+
chr11924537251924543141924540783216.96+
chr169378903993789760937892103045.36+
Download the Full Merged Peak List


Visualization

Manual



Motif Analysis

Manual





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