Variant report

Variant	rs3958762
Chromosome Location	chr12:45937410-45937411
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:45936322..45939526-chr12:46119139..46122745,5	MCF-7	breast:
2	chr12:45937305..45937822-chr12:46139716..46140271,2	MCF-7	breast:
3	chr12:45932018..45945296-chr12:46116937..46125620,30	MCF-7	breast:
4	chr12:45929552..45932497-chr12:45935767..45937875,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000189079	Chromatin interaction
ENSG00000273015	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10785580	0.85[CEU][hapmap]
rs10785581	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10880808	0.81[EUR][1000 genomes]
rs10880809	0.83[EUR][1000 genomes]
rs10880810	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10880811	0.80[EUR][1000 genomes]
rs10880813	0.86[EUR][1000 genomes]
rs10880815	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10880816	0.81[CEU][hapmap]
rs11183092	0.81[EUR][1000 genomes]
rs11183094	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs11183098	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11183099	0.93[EUR][1000 genomes]
rs11183100	0.80[EUR][1000 genomes]
rs11183101	0.88[EUR][1000 genomes]
rs11183103	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11514430	0.83[EUR][1000 genomes]
rs11514431	0.80[EUR][1000 genomes]
rs12296782	0.90[ASN][1000 genomes]
rs1806689	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs2408249	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2897908	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35331157	0.89[ASN][1000 genomes]
rs4450222	0.85[EUR][1000 genomes]
rs4601849	0.81[EUR][1000 genomes]
rs4606536	0.93[EUR][1000 genomes]
rs4768631	0.83[EUR][1000 genomes]
rs4768633	0.91[EUR][1000 genomes]
rs4768635	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4768636	0.92[CEU][hapmap]
rs4768637	1.00[JPT][hapmap]
rs55987675	0.80[EUR][1000 genomes]
rs56295584	0.92[EUR][1000 genomes]
rs61923980	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7132173	0.89[CEU][hapmap]
rs7296623	0.90[EUR][1000 genomes]
rs7297465	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7303050	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs7960483	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7970315	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832395	chr12:45841765-46039297	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv691	chr12:45896295-45946455	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv1842210	chr12:45903118-45940761	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45935200-45940400	Weak transcription	Thymus	Thymus
2	chr12:45937000-45937600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr12:45937000-45937800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr12:45937200-45938000	Enhancers	Duodenum Mucosa	Duodenum
5	chr12:45937200-45938000	Enhancers	Fetal Thymus	thymus
6	chr12:45937200-45938000	Enhancers	Dnd41	blood
7	chr12:45937400-45937600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr12:45937400-45937600	Flanking Bivalent TSS/Enh	GM12878-XiMat	blood
9	chr12:45937400-45937800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr12:45937400-45937800	Enhancers	Brain Anterior Caudate	brain
11	chr12:45937400-45937800	Enhancers	Hela-S3	cervix
12	chr12:45937400-45938000	Enhancers	Brain Hippocampus Middle	brain

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