Variant report

Variant	rs6878671
Chromosome Location	chr5:124609427-124609428
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:124608857..124611312-chr5:124615964..124618402,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1118619	0.84[EUR][1000 genomes]
rs11738947	0.93[EUR][1000 genomes]
rs12153456	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12520745	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12522773	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1371379	0.93[EUR][1000 genomes]
rs1439603	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs1439606	0.89[EUR][1000 genomes]
rs17152484	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17152494	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17152504	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2196838	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57076729	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57689949	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57839809	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58310573	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882823	chr5:124569471-124639468	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:124599800-124613400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:124604200-124612400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:124605800-124611800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:124608400-124612800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:124608600-124609600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr5:124608800-124609600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:124608800-124612600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr5:124609000-124609600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr5:124609000-124610200	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr5:124609000-124614800	Enhancers	HUVEC	blood vessel
11	chr5:124609200-124609600	Enhancers	Stomach Mucosa	stomach
12	chr5:124609200-124609800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr5:124609200-124610000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr5:124609200-124610800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr5:124609200-124611000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr5:124609200-124612800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr5:124609200-124613600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr5:124609400-124610000	Weak transcription	Fetal Heart	heart
19	chr5:124609400-124610800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr5:124609400-124611200	Weak transcription	Brain Germinal Matrix	brain

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