Variant report

Variant	rs2544430
Chromosome Location	chr4:106712239-106712240
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106707269..106709728-chr4:106711116..106713175,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10516524	0.94[ASN][1000 genomes]
rs11097896	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294668	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294671	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294672	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17261786	0.83[ASN][1000 genomes]
rs17262443	0.83[ASN][1000 genomes]
rs17262457	0.83[ASN][1000 genomes]
rs17263714	0.94[ASN][1000 genomes]
rs17264527	0.94[ASN][1000 genomes]
rs1862081	1.00[ASN][1000 genomes]
rs1982346	0.83[ASN][1000 genomes]
rs2098571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2112047	1.00[ASN][1000 genomes]
rs2112049	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2161046	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2193855	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2193856	1.00[ASN][1000 genomes]
rs2193857	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2216515	1.00[ASN][1000 genomes]
rs2216516	1.00[ASN][1000 genomes]
rs2256746	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544399	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544401	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2544402	1.00[ASN][1000 genomes]
rs2544403	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544414	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2544417	1.00[ASN][1000 genomes]
rs2544418	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544424	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544426	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544429	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553446	1.00[ASN][1000 genomes]
rs2553448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2553451	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553452	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553456	1.00[ASN][1000 genomes]
rs2553457	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553460	1.00[ASN][1000 genomes]
rs2553461	1.00[ASN][1000 genomes]
rs2553463	1.00[ASN][1000 genomes]
rs2553464	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553466	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553467	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553469	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553470	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2866781	1.00[ASN][1000 genomes]
rs3943980	1.00[ASN][1000 genomes]
rs56843185	0.94[ASN][1000 genomes]
rs73837092	0.83[ASN][1000 genomes]
rs73837096	0.83[ASN][1000 genomes]
rs73839004	0.94[ASN][1000 genomes]
rs73839006	0.94[ASN][1000 genomes]
rs73839007	0.94[ASN][1000 genomes]
rs73839008	0.94[ASN][1000 genomes]
rs73839010	0.94[ASN][1000 genomes]
rs7676226	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879700	chr4:106643445-106745057	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv436449	chr4:106706856-106717563	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3465892	chr4:106707173-106717240	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv3465891	chr4:106707198-106717201	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3465890	chr4:106707206-106717231	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3465893	chr4:106707256-106717168	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv3465894	chr4:106707256-106717168	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv13123	chr4:106708350-106717147	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3692832	chr4:106709583-106716527	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv441904	chr4:106710092-106717094	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv514237	chr4:106710207-106716663	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106692400-106729400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:106694000-106718200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr4:106695200-106757000	Weak transcription	Primary B cells from cord blood	blood
4	chr4:106697200-106725800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr4:106697800-106723200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:106698000-106725200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr4:106698200-106719200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr4:106703200-106755600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr4:106705600-106713400	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links