Variant report

Variant	rs660446
Chromosome Location	chr3:43079475-43079476
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs13095711	0.91[ASN][1000 genomes]
rs2280565	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2936817	0.85[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs34970115	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35339908	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs473467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs477594	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs496436	0.89[CHB][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs504973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs536119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56009835	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs606336	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs643663	0.86[ASN][1000 genomes]
rs648273	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs658958	0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs697327	0.86[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs870238	0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs9311333	0.81[JPT][hapmap]
rs9882262	0.80[JPT][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460522	chr3:42967597-43175207	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv590149	chr3:42967597-43175207	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv432417	chr3:43045796-43098296	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv979824	chr3:43079103-43080204	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43059600-43084600	Weak transcription	Pancreas	Pancrea
2	chr3:43061000-43080200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:43063600-43084800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:43065400-43084400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:43067600-43084000	Weak transcription	Aorta	Aorta
6	chr3:43070600-43084800	Weak transcription	Esophagus	oesophagus
7	chr3:43073400-43084600	Weak transcription	Brain Angular Gyrus	brain
8	chr3:43073400-43084600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:43073600-43084400	Weak transcription	Adipose Nuclei	Adipose
10	chr3:43074600-43084200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:43074800-43081200	Weak transcription	Fetal Intestine Small	intestine
12	chr3:43075200-43084200	Weak transcription	Ovary	ovary
13	chr3:43077200-43084400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:43077600-43084600	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:43077800-43080000	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr3:43078400-43084200	Weak transcription	Placenta	Placenta
17	chr3:43078800-43084200	Weak transcription	Liver	Liver
18	chr3:43078800-43084400	Weak transcription	Fetal Stomach	stomach
19	chr3:43079000-43080400	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr3:43079000-43085400	Weak transcription	Fetal Muscle Leg	muscle
21	chr3:43079200-43079600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:43079200-43080600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:43079200-43080600	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr3:43079400-43080000	Enhancers	Primary T cells from cord blood	blood
25	chr3:43079400-43080000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr3:43079400-43080600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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