Variant report

Variant	rs2498589
Chromosome Location	chr6:118030238-118030239
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10872155	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11153695	0.87[EUR][1000 genomes]
rs2498586	0.89[EUR][1000 genomes]
rs2498587	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2498588	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2501625	0.89[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4330560	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4406269	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4552764	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6899715	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72951506	0.88[EUR][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	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv830786	chr6:118026955-118201660	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv969438	chr6:118028073-118031508	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117999000-118039800	Weak transcription	Gastric	stomach
2	chr6:117999000-118042000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:118009400-118039800	Weak transcription	Small Intestine	intestine
4	chr6:118012600-118039600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:118016600-118040000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:118016800-118032400	Weak transcription	Fetal Stomach	stomach
7	chr6:118017000-118033200	Weak transcription	Fetal Intestine Small	intestine
8	chr6:118017000-118040000	Weak transcription	Pancreas	Pancrea
9	chr6:118021600-118032600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:118025600-118034200	Weak transcription	HMEC	breast
11	chr6:118026800-118032000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:118026800-118034200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:118026800-118034200	Weak transcription	Aorta	Aorta
14	chr6:118027000-118034200	Weak transcription	Right Ventricle	heart
15	chr6:118027200-118032600	Weak transcription	HSMMtube	muscle
16	chr6:118027400-118040000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr6:118027800-118031000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:118027800-118034400	Weak transcription	Primary B cells from cord blood	blood
19	chr6:118028000-118032400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:118028000-118032400	Weak transcription	HSMM	muscle
21	chr6:118028000-118032600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:118028000-118034000	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr6:118028000-118034000	Weak transcription	Stomach Smooth Muscle	stomach
24	chr6:118028000-118034000	Weak transcription	HUVEC	blood vessel
25	chr6:118028000-118034200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr6:118028000-118034200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:118028000-118034200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:118028000-118034600	Weak transcription	Osteobl	bone
29	chr6:118028200-118030400	Weak transcription	HepG2	liver
30	chr6:118028200-118031200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:118028200-118031200	Weak transcription	Left Ventricle	heart
32	chr6:118028200-118032000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:118028200-118032000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:118028200-118032400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:118028200-118032600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr6:118028200-118033200	Weak transcription	Fetal Thymus	thymus
37	chr6:118028200-118034000	Weak transcription	Primary T cells from cord blood	blood
38	chr6:118028200-118034000	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr6:118028200-118034000	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr6:118028200-118034000	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr6:118028200-118034200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:118028200-118034200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr6:118028200-118034200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:118028200-118034200	Weak transcription	Brain Hippocampus Middle	brain
45	chr6:118028200-118034200	Weak transcription	Fetal Intestine Large	intestine
46	chr6:118028200-118034200	Weak transcription	Fetal Muscle Trunk	muscle
47	chr6:118028200-118034200	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr6:118028200-118034200	Weak transcription	Thymus	Thymus
49	chr6:118028200-118034200	Weak transcription	NHDF-Ad	bronchial
50	chr6:118028200-118034400	Weak transcription	HUES48 Cell Line	embryonic stem cell

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