Variant report

Variant	rs41269285
Chromosome Location	chr6:28194799-28194800
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28182735..28195387-chr6:28315960..28325841,32	K562	blood:
2	chr6:28190987..28192829-chr6:28194559..28196499,2	MCF-7	breast:
3	chr6:28191649..28195458-chr6:28301378..28307708,9	K562	blood:
4	chr6:28183629..28195178-chr6:28316250..28325659,29	K562	blood:
5	chr6:28103649..28105487-chr6:28192545..28194839,2	MCF-7	breast:
6	chr6:28191711..28195552-chr6:28216768..28221883,5	MCF-7	breast:
7	chr6:28191542..28194803-chr6:28365970..28368645,4	K562	blood:
8	chr6:28191609..28196785-chr6:28301378..28305522,8	K562	blood:
9	chr6:28108436..28110620-chr6:28192837..28194996,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000189298	Chromatin interaction
ENSG00000158691	Chromatin interaction
ENSG00000261839	Chromatin interaction
ENSG00000198315	Chromatin interaction
ENSG00000137185	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000269293	Chromatin interaction
ENSG00000187626	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

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]
rs41269287	1.00[ASN][1000 genomes]
rs41269289	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs41269291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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]
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]
rs72848776	1.00[ASN][1000 genomes]
rs72848784	1.00[ASN][1000 genomes]
rs72848785	1.00[ASN][1000 genomes]
rs72848793	1.00[AFR][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:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28193600-28194800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr6:28193600-28195000	Flanking Active TSS	Brain Germinal Matrix	brain
3	chr6:28193600-28195000	Weak transcription	Esophagus	oesophagus
4	chr6:28193600-28195000	Weak transcription	Spleen	Spleen
5	chr6:28193600-28213400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:28193800-28194800	Weak transcription	Left Ventricle	heart
7	chr6:28193800-28194800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:28193800-28195000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:28193800-28195000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:28193800-28195000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:28193800-28195000	Weak transcription	Aorta	Aorta
12	chr6:28193800-28195000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:28193800-28195000	Weak transcription	Brain Substantia Nigra	brain
14	chr6:28193800-28195000	Weak transcription	Fetal Heart	heart
15	chr6:28193800-28195000	Enhancers	Placenta	Placenta
16	chr6:28193800-28195000	Weak transcription	Gastric	stomach
17	chr6:28193800-28195000	Weak transcription	Lung	lung
18	chr6:28193800-28195000	Weak transcription	Ovary	ovary
19	chr6:28193800-28195000	Weak transcription	Pancreas	Pancrea
20	chr6:28193800-28195000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:28193800-28195200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:28193800-28195200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:28193800-28195400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr6:28193800-28195400	Weak transcription	NHDF-Ad	bronchial
25	chr6:28193800-28195600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:28193800-28195600	Weak transcription	Brain Angular Gyrus	brain
27	chr6:28193800-28195600	Weak transcription	Brain Anterior Caudate	brain
28	chr6:28193800-28196000	Weak transcription	Small Intestine	intestine
29	chr6:28193800-28204000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr6:28193800-28211800	Weak transcription	Fetal Thymus	thymus
31	chr6:28193800-28218400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:28193800-28218400	Weak transcription	Stomach Mucosa	stomach
33	chr6:28194000-28194800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:28194000-28194800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:28194000-28194800	Flanking Active TSS	Fetal Brain Female	brain
36	chr6:28194000-28194800	Enhancers	Fetal Lung	lung
37	chr6:28194000-28194800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr6:28194000-28194800	Weak transcription	NHEK	skin
39	chr6:28194000-28195000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:28194000-28195000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:28194000-28195000	Weak transcription	Liver	Liver
42	chr6:28194000-28195000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr6:28194000-28195000	Weak transcription	Duodenum Mucosa	Duodenum
44	chr6:28194000-28195000	Weak transcription	Fetal Intestine Large	intestine
45	chr6:28194000-28195000	Weak transcription	Fetal Intestine Small	intestine
46	chr6:28194000-28195000	Weak transcription	Right Atrium	heart
47	chr6:28194000-28195000	Weak transcription	Right Ventricle	heart
48	chr6:28194000-28195200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr6:28194000-28195200	Weak transcription	Rectal Smooth Muscle	rectum
50	chr6:28194000-28195400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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