Variant report

Variant	rs41269291
Chromosome Location	chr6:28251539-28251540
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28245880..28256877-chr6:28299741..28307557,21	K562	blood:
2	chr6:28180671..28183155-chr6:28250254..28252159,2	K562	blood:
3	chr6:28249255..28252885-chr6:28315781..28319284,4	K562	blood:
4	chr6:28186460..28191177-chr6:28246836..28252039,7	K562	blood:
5	chr6:28249727..28254264-chr6:28300327..28304071,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000176933	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000189298	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1150710	1.00[ASN][1000 genomes]
rs11546572	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2079705	1.00[AFR][1000 genomes]
rs41269285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41269287	1.00[ASN][1000 genomes]
rs41269289	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs41270579	1.00[AFR][1000 genomes]
rs41270589	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4540253	1.00[AFR][1000 genomes]
rs61744109	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62620226	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844204	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs72844212	1.00[AFR][1000 genomes]
rs72844218	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs72844220	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs72844226	1.00[AFR][1000 genomes]
rs72846777	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72846788	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72846792	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72846797	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72846802	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849204	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849206	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849222	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850297	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72850298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850299	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72850300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72850302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851105	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851135	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851138	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851139	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851156	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851158	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851160	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851161	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851168	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851173	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs72851179	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs72851182	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72854503	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854506	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72854515	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854521	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72854522	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854525	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854527	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854531	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854533	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72854535	1.00[AFR][1000 genomes]
rs72854536	1.00[AFR][1000 genomes]
rs72854546	1.00[AFR][1000 genomes]
rs72854556	1.00[AFR][1000 genomes]
rs7752415	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28249800-28251600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:28249800-28272200	Weak transcription	Spleen	Spleen
3	chr6:28250000-28251600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:28250000-28251600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:28250000-28251600	Weak transcription	Aorta	Aorta
6	chr6:28250000-28251600	Weak transcription	Lung	lung
7	chr6:28250000-28251800	Weak transcription	Ovary	ovary
8	chr6:28250000-28252200	Weak transcription	Fetal Intestine Large	intestine
9	chr6:28250000-28253200	Weak transcription	Placenta	Placenta
10	chr6:28250000-28254800	Weak transcription	Primary B cells from cord blood	blood
11	chr6:28250000-28254800	Weak transcription	Pancreas	Pancrea
12	chr6:28250000-28254800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:28250000-28255000	Weak transcription	Esophagus	oesophagus
14	chr6:28250000-28258000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr6:28250000-28258600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:28250000-28277600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr6:28250000-28293800	Weak transcription	Gastric	stomach
18	chr6:28250200-28251600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:28250200-28251600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:28250200-28251600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:28250200-28251600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr6:28250200-28251600	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:28250200-28251600	Weak transcription	Fetal Stomach	stomach
24	chr6:28250200-28251800	Weak transcription	Brain Angular Gyrus	brain
25	chr6:28250200-28252800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr6:28250200-28273800	Weak transcription	Thymus	Thymus
27	chr6:28250400-28251600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:28250400-28251600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr6:28250400-28251600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:28250400-28252200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:28250400-28252800	Weak transcription	Fetal Brain Male	brain
32	chr6:28250400-28254000	Weak transcription	Brain Anterior Caudate	brain
33	chr6:28250400-28265600	Weak transcription	Primary T cells from cord blood	blood
34	chr6:28250400-28278600	Weak transcription	Duodenum Mucosa	Duodenum
35	chr6:28250600-28251600	Weak transcription	Right Ventricle	heart
36	chr6:28250600-28251600	Weak transcription	Stomach Smooth Muscle	stomach
37	chr6:28250600-28251600	Weak transcription	NHLF	lung
38	chr6:28250600-28251800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:28250600-28252000	ZNF genes & repeats	Liver	Liver
40	chr6:28250600-28252400	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr6:28250600-28253800	Weak transcription	HUVEC	blood vessel
42	chr6:28250600-28254800	Weak transcription	Fetal Thymus	thymus
43	chr6:28250600-28254800	Weak transcription	HMEC	breast
44	chr6:28250600-28254800	Weak transcription	NHDF-Ad	bronchial
45	chr6:28250600-28267000	Weak transcription	NHEK	skin
46	chr6:28250600-28270800	Weak transcription	Fetal Heart	heart
47	chr6:28250600-28280600	Weak transcription	Rectal Smooth Muscle	rectum
48	chr6:28250800-28251600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:28250800-28251600	Weak transcription	Fetal Kidney	kidney
50	chr6:28250800-28251800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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