Variant report

Variant	rs2328386
Chromosome Location	chr6:143144958-143144959
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	chr6:143143462..143146087-chr6:143265614..143267606,3	MCF-7	breast:
2	chr6:143144618..143147741-chr6:143149316..143151802,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000010818	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1040439	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs198646	0.82[CEU][hapmap];0.84[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs198657	0.85[JPT][hapmap]
rs2142939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs493985	0.89[ASN][1000 genomes]
rs573352	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs592503	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7752766	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763660	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs926372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376708	0.86[EUR][1000 genomes]
rs9376711	0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830829	chr6:143058408-143218077	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1019558	chr6:143121577-143154554	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143133400-143145600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:143140400-143152000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:143140800-143152000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:143141200-143145600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:143141400-143145000	Enhancers	Brain Hippocampus Middle	brain
6	chr6:143141400-143145000	Enhancers	Brain Substantia Nigra	brain
7	chr6:143141400-143145400	Enhancers	Fetal Lung	lung
8	chr6:143141400-143152000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr6:143141600-143145000	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr6:143141600-143145000	Enhancers	Adipose Nuclei	Adipose
11	chr6:143141600-143145000	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr6:143141600-143152200	Weak transcription	NH-A	brain
13	chr6:143141600-143153800	Weak transcription	HSMMtube	muscle
14	chr6:143141800-143145000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:143141800-143145000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:143142000-143145000	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr6:143142000-143146800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:143142000-143147800	Weak transcription	Stomach Mucosa	stomach
19	chr6:143142000-143153400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:143142200-143148000	Weak transcription	A549	lung
21	chr6:143142200-143151600	Weak transcription	Osteobl	bone
22	chr6:143142200-143153400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:143142400-143145000	Enhancers	Right Ventricle	heart
24	chr6:143142400-143145800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr6:143142400-143145800	Weak transcription	NHEK	skin
26	chr6:143142600-143147600	Weak transcription	HUVEC	blood vessel
27	chr6:143142600-143153800	Weak transcription	Primary hematopoietic stem cells	blood
28	chr6:143142600-143155000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr6:143142800-143145000	Enhancers	Brain Angular Gyrus	brain
30	chr6:143142800-143145600	Weak transcription	Fetal Intestine Large	intestine
31	chr6:143142800-143147000	Enhancers	Fetal Brain Female	brain
32	chr6:143142800-143155000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr6:143143000-143145800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:143143200-143145600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:143143200-143145800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr6:143143200-143153800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr6:143143400-143145600	Weak transcription	Fetal Kidney	kidney
38	chr6:143143400-143145600	Weak transcription	Fetal Stomach	stomach
39	chr6:143143400-143145600	Weak transcription	Ovary	ovary
40	chr6:143143400-143145600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr6:143143400-143145600	Weak transcription	NHDF-Ad	bronchial
42	chr6:143143400-143145800	Weak transcription	Small Intestine	intestine
43	chr6:143143400-143147400	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr6:143143400-143147600	Weak transcription	Fetal Heart	heart
45	chr6:143143400-143148600	Weak transcription	Duodenum Mucosa	Duodenum
46	chr6:143143400-143152000	Weak transcription	Gastric	stomach
47	chr6:143143400-143157400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr6:143143400-143159600	Weak transcription	HepG2	liver
49	chr6:143143400-143160600	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr6:143143800-143151400	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links