Variant report

Variant	rs10484855
Chromosome Location	chr6:38578350-38578351
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	chr6:38571505..38574322-chr6:38577217..38578879,2	K562	blood:
2	chr6:38577291..38580074-chr6:38606571..38609057,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183826	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1130534	0.80[EUR][1000 genomes]
rs11751782	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206711	1.00[ASN][1000 genomes]
rs12212784	1.00[ASN][1000 genomes]
rs12524122	1.00[YRI][hapmap]
rs12526818	1.00[YRI][hapmap]
rs12528446	1.00[YRI][hapmap]
rs13191302	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13194237	0.85[EUR][1000 genomes]
rs13196530	1.00[CEU][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196708	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13198900	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13199033	0.88[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13202862	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13203443	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13207160	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209846	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13210334	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13212218	0.88[CEU][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13213257	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214969	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13215896	0.88[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13217234	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13218305	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219252	1.00[CEU][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219395	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13219781	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1698998	1.00[ASN][1000 genomes]
rs17544311	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17544868	0.88[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17614684	0.88[CEU][hapmap]
rs1937782	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2654449	1.00[ASN][1000 genomes]
rs28360530	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34349982	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34360712	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34408317	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34470929	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34519749	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34637217	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34695044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34897279	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34962226	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34971977	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35147121	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35152718	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35207097	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35266471	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35364976	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35388596	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35901431	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35975219	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67457665	1.00[ASN][1000 genomes]
rs6932648	0.88[CEU][hapmap]
rs71544423	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71571331	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71571332	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71571336	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72856580	1.00[ASN][1000 genomes]
rs73416349	1.00[ASN][1000 genomes]
rs73416350	1.00[ASN][1000 genomes]
rs73416351	1.00[ASN][1000 genomes]
rs7451595	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7604	0.88[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746400	1.00[ASN][1000 genomes]
rs7750789	1.00[ASN][1000 genomes]
rs7762397	1.00[ASN][1000 genomes]
rs9394523	0.88[CEU][hapmap]
rs9394524	0.88[CEU][hapmap]
rs963720	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38556000-38580400	Weak transcription	Ovary	ovary
2	chr6:38560800-38580000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr6:38560800-38580200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:38562200-38580000	Weak transcription	Aorta	Aorta
5	chr6:38562800-38579800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:38564000-38580400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr6:38565400-38589200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:38565800-38583200	Weak transcription	Primary T cells from cord blood	blood
9	chr6:38565800-38583600	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr6:38567800-38580400	Weak transcription	Right Ventricle	heart
11	chr6:38568200-38580000	Weak transcription	Psoas Muscle	Psoas
12	chr6:38568200-38584200	Weak transcription	Primary B cells from cord blood	blood
13	chr6:38571000-38580000	Weak transcription	Small Intestine	intestine
14	chr6:38571600-38581800	Weak transcription	Left Ventricle	heart
15	chr6:38572000-38591600	Weak transcription	Fetal Intestine Small	intestine
16	chr6:38572600-38579800	Weak transcription	NHLF	lung
17	chr6:38572800-38579800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr6:38572800-38581800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:38573000-38579800	Weak transcription	HSMMtube	muscle
20	chr6:38576200-38579800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:38577600-38578600	Enhancers	Brain Hippocampus Middle	brain
22	chr6:38577600-38580800	Enhancers	Fetal Lung	lung
23	chr6:38577800-38578400	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr6:38577800-38578400	Active TSS	Stomach Smooth Muscle	stomach
25	chr6:38577800-38580400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:38578000-38578400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:38578000-38578400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:38578000-38578400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr6:38578000-38578400	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr6:38578000-38578400	Enhancers	NH-A	brain
31	chr6:38578000-38578600	Enhancers	Brain Cingulate Gyrus	brain
32	chr6:38578000-38578600	Enhancers	Stomach Mucosa	stomach
33	chr6:38578000-38578600	Enhancers	Osteobl	bone
34	chr6:38578000-38581400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:38578000-38582600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr6:38578200-38578400	Enhancers	Colon Smooth Muscle	Colon
37	chr6:38578200-38578600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:38578200-38578600	Enhancers	HUVEC	blood vessel

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