Variant report

Variant	rs68182041
Chromosome Location	chr6:24283345-24283346
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:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:24283175..24284815-chr6:24359561..24361041,12	MCF-7	breast:
2	chr6:24282963..24283844-chr6:24390234..24391089,2	MCF-7	breast:
3	chr6:24282520..24284715-chr6:24405070..24407671,2	MCF-7	breast:
4	chr6:24282939..24284070-chr6:24389118..24390156,6	MCF-7	breast:
5	chr6:24281828..24284999-chr6:24354828..24358110,4	MCF-7	breast:
6	chr6:24283118..24284052-chr6:25602734..25603362,2	K562	blood:
7	chr6:24283208..24284031-chr6:24389181..24390289,7	MCF-7	breast:
8	chr6:24282573..24285599-chr6:24386965..24389138,3	K562	blood:
9	chr6:24283098..24284101-chr6:24385382..24386702,5	MCF-7	breast:
10	chr6:24282956..24283866-chr6:24389181..24390147,5	K562	blood:
11	chr6:24281863..24285014-chr6:24356615..24360077,4	MCF-7	breast:
12	chr6:24281775..24284260-chr6:24359000..24360636,2	MCF-7	breast:
13	chr6:24282994..24284064-chr6:24359605..24360545,4	MCF-7	breast:
14	chr6:24282327..24284460-chr6:24388227..24391209,2	MCF-7	breast:
15	chr6:24283315..24283877-chr6:24386876..24387657,2	MCF-7	breast:
16	chr6:24282882..24283800-chr6:24521072..24521695,2	K562	blood:
17	chr6:24282990..24283576-chr6:24521142..24521868,2	MCF-7	breast:
18	chr6:24282475..24284958-chr6:24289359..24291059,2	K562	blood:
19	chr6:24283299..24283971-chr6:24417287..24417853,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000146038	Chromatin interaction
ENSG00000146049	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1091045	0.93[ASN][1000 genomes]
rs1091046	0.95[ASN][1000 genomes]
rs1091047	0.96[ASN][1000 genomes]
rs1109332	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11754080	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754278	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11757997	0.87[ASN][1000 genomes]
rs11757999	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17302512	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17302582	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17302729	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2262443	0.94[ASN][1000 genomes]
rs2296537	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2296538	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2328208	0.94[ASN][1000 genomes]
rs28921369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28924368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3789224	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3789225	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3789227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3804327	0.96[ASN][1000 genomes]
rs58592947	0.96[ASN][1000 genomes]
rs59166901	0.83[ASN][1000 genomes]
rs59975176	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60387283	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60537291	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62400411	0.93[ASN][1000 genomes]
rs62400414	0.95[ASN][1000 genomes]
rs62400417	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62403468	0.81[ASN][1000 genomes]
rs66492054	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66531067	0.96[AFR][1000 genomes]
rs66735044	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67482549	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67939976	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828983	0.83[EUR][1000 genomes]
rs72828999	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72830803	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72830805	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72830807	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72830822	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72830828	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72830832	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72830841	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830842	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830843	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72830851	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72830854	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72830855	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72830859	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72830865	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72830874	0.96[ASN][1000 genomes]
rs73394078	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73394097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394100	0.94[AFR][1000 genomes]
rs73396004	0.94[AFR][1000 genomes]
rs73396022	0.92[AFR][1000 genomes]
rs73396024	0.88[AFR][1000 genomes]
rs807712	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv427746	chr6:24221299-24305709	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24270400-24283800	Weak transcription	Pancreas	Pancrea
2	chr6:24271200-24283400	Weak transcription	Fetal Intestine Small	intestine
3	chr6:24274200-24283800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:24282600-24284600	Enhancers	Fetal Muscle Leg	muscle
5	chr6:24282800-24284600	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr6:24282800-24284600	Enhancers	GM12878-XiMat	blood
7	chr6:24283000-24283400	Enhancers	Adipose Nuclei	Adipose
8	chr6:24283000-24283400	Enhancers	Brain Anterior Caudate	brain
9	chr6:24283000-24283400	Enhancers	Brain Hippocampus Middle	brain
10	chr6:24283000-24283400	Enhancers	Rectal Smooth Muscle	rectum
11	chr6:24283000-24283600	Enhancers	Primary T cells from cord blood	blood
12	chr6:24283000-24283800	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr6:24283000-24283800	Active TSS	A549	lung
14	chr6:24283000-24283800	Enhancers	HepG2	liver
15	chr6:24283000-24284000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr6:24283000-24284000	Enhancers	Osteobl	bone
17	chr6:24283000-24284200	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr6:24283000-24284200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:24283000-24284200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:24283000-24284200	Enhancers	Brain Substantia Nigra	brain
21	chr6:24283000-24284200	Enhancers	Fetal Intestine Large	intestine
22	chr6:24283000-24284200	Flanking Active TSS	Hela-S3	cervix
23	chr6:24283000-24284200	Enhancers	HSMM	muscle
24	chr6:24283000-24284200	Enhancers	NHEK	skin
25	chr6:24283000-24284400	Enhancers	Primary B cells from peripheral blood	blood
26	chr6:24283000-24284400	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr6:24283000-24284400	Enhancers	Liver	Liver
28	chr6:24283000-24284400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr6:24283000-24284400	Enhancers	Fetal Stomach	stomach
30	chr6:24283000-24284600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:24283200-24283400	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr6:24283200-24283400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr6:24283200-24283400	Enhancers	Primary hematopoietic stem cells	blood
34	chr6:24283200-24283400	Active TSS	Primary T helper cells PMA-I stimulated	--
35	chr6:24283200-24283400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:24283200-24283400	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:24283200-24283400	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr6:24283200-24283400	Active TSS	Skeletal Muscle Male	skeletal muscle
39	chr6:24283200-24283400	Active TSS	Dnd41	blood
40	chr6:24283200-24283400	Active TSS	NH-A	brain
41	chr6:24283200-24283600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr6:24283200-24283600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr6:24283200-24283600	Active TSS	Brain Angular Gyrus	brain
44	chr6:24283200-24283600	Active TSS	Rectal Mucosa Donor 29	rectum
45	chr6:24283200-24283600	Active TSS	K562	blood
46	chr6:24283200-24283600	Enhancers	Monocytes-CD14+_RO01746	blood
47	chr6:24283200-24283600	Active TSS	NHDF-Ad	bronchial
48	chr6:24283200-24283800	Active TSS	Stomach Smooth Muscle	stomach
49	chr6:24283200-24284000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
50	chr6:24283200-24284000	Flanking Active TSS	Fetal Kidney	kidney

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