Variant report

Variant	rs1406945
Chromosome Location	chr6:36562441-36562442
allele	C/G
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:66)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:66 , 50 per page) page: 1 2

No.	Distal block	Cell Line	Cell type
1	chr16:2014381..2015067-chr6:36561884..36562447,2	Hela-S3	cervix:
2	chr12:94070941..94071672-chr6:36561967..36562606,2	NB4	blood:
3	chr16:67062734..67063564-chr6:36561666..36562620,2	Hela-S3	cervix:
4	chr14:103799972..103800722-chr6:36561663..36562606,2	Hela-S3	cervix:
5	chr6:36507762..36509333-chr6:36562439..36564848,2	K562	blood:
6	chr6:36561839..36564756-chr6:36723772..36727529,4	MCF-7	breast:
7	chr6:36353258..36355030-chr6:36561676..36563498,3	K562	blood:
8	chr13:41239622..41242900-chr6:36559816..36562746,3	MCF-7	breast:
9	chr6:36475084..36480133-chr6:36561035..36564418,5	MCF-7	breast:
10	chr1:245027308..245028019-chr6:36561947..36562540,2	Hela-S3	cervix:
11	chr6:36408693..36414213-chr6:36560362..36565197,15	MCF-7	breast:
12	chr16:87901543..87903905-chr6:36560786..36562895,2	MCF-7	breast:
13	chr6:36560169..36564521-chr6:36645252..36648947,8	MCF-7	breast:
14	chr6:35994747..35997169-chr6:36562025..36564113,2	K562	blood:
15	chr1:8014093..8014621-chr6:36562077..36562615,2	HCT-116	colon:
16	chr11:67777523..67778410-chr6:36562073..36562583,2	Hela-S3	cervix:
17	chr16:2059438..2060274-chr6:36561697..36562589,2	NB4	blood:
18	chr17:15902833..15904760-chr6:36560081..36562518,2	MCF-7	breast:
19	chr20:49346053..49349003-chr6:36560954..36563176,2	MCF-7	breast:
20	chr17:62503297..62503799-chr6:36561697..36562571,2	Hela-S3	cervix:
21	chr6:36467629..36469288-chr6:36562211..36564432,2	K562	blood:
22	chr1:149856968..149859829-chr6:36562131..36563739,2	K562	blood:
23	chr6:36561901..36562650-chr8:54793415..54793991,2	HCT-116	colon:
24	chr6:36560711..36564837-chr6:36645733..36649715,9	K562	blood:
25	chr1:35324863..35325425-chr6:36561747..36562506,2	HCT-116	colon:
26	chr19:46010497..46011135-chr6:36561925..36562450,2	Hela-S3	cervix:
27	chr6:36562081..36564755-chr6:36642636..36644724,2	K562	blood:
28	chr6:36562362..36564787-chr6:36830127..36831778,2	K562	blood:
29	chr6:36561840..36562464-chr7:148787408..148788079,2	HCT-116	colon:
30	chr15:65596911..65597487-chr6:36562093..36562612,2	Hela-S3	cervix:
31	chr6:36560234..36563233-chr6:36722828..36725947,3	MCF-7	breast:
32	chr6:36409676..36411524-chr6:36561404..36563717,3	MCF-7	breast:
33	chr6:36562412..36564652-chr6:36674547..36676281,2	K562	blood:
34	chr6:36560048..36562524-chr6:36680718..36683853,3	K562	blood:
35	chr3:10157265..10157830-chr6:36562093..36562957,2	Hela-S3	cervix:
36	chr6:36560285..36563984-chr6:36645642..36649715,8	K562	blood:
37	chr17:73775388..73776073-chr6:36562189..36562820,3	Hela-S3	cervix:
38	chr6:36352652..36355628-chr6:36561325..36563176,3	K562	blood:
39	chr14:67707644..67708448-chr6:36561991..36562788,2	Hela-S3	cervix:
40	chr17:47865873..47866659-chr6:36561766..36562443,2	HCT-116	colon:
41	chr6:36561854..36562568-chr7:75987997..75988967,2	Hela-S3	cervix:
42	chr18:48556236..48556937-chr6:36561882..36562834,2	HCT-116	colon:
43	chr6:36561980..36564185-chr6:36840792..36844090,3	K562	blood:
44	chr16:31470071..31470956-chr6:36561864..36562752,2	Hela-S3	cervix:
45	chr17:56405201..56407928-chr6:36560786..36562676,2	K562	blood:
46	chr6:36418967..36422743-chr6:36560757..36563543,3	K562	blood:
47	chr6:36488938..36493688-chr6:36561807..36564126,6	MCF-7	breast:
48	chr6:36510007..36526277-chr6:36558145..36566762,35	K562	blood:
49	chr6:36403741..36414959-chr6:36560215..36569964,50	K562	blood:
50	chr2:178076779..178077332-chr6:36561885..36562622,2	NB4	blood:

No data

Variant related genes	Relation type
ENSG00000168010	Chromatin interaction
ENSG00000184260	Chromatin interaction
ENSG00000255198	Chromatin interaction
ENSG00000141646	Chromatin interaction
ENSG00000103257	Chromatin interaction
ENSG00000167553	Chromatin interaction
ENSG00000067955	Chromatin interaction
ENSG00000240733	Chromatin interaction
ENSG00000006534	Chromatin interaction
ENSG00000239964	Chromatin interaction
ENSG00000112079	Chromatin interaction
ENSG00000140691	Chromatin interaction
ENSG00000124762	Chromatin interaction
ENSG00000113369	Chromatin interaction
ENSG00000116288	Chromatin interaction
ENSG00000140988	Chromatin interaction
ENSG00000153187	Chromatin interaction
ENSG00000124171	Chromatin interaction
ENSG00000224666	Chromatin interaction
ENSG00000150907	Chromatin interaction
ENSG00000072415	Chromatin interaction
ENSG00000183971	Chromatin interaction
ENSG00000010030	Chromatin interaction
ENSG00000227540	Chromatin interaction
ENSG00000163866	Chromatin interaction
ENSG00000147509	Chromatin interaction
ENSG00000108654	Chromatin interaction
ENSG00000179165	Chromatin interaction
ENSG00000170144	Chromatin interaction
ENSG00000178096	Chromatin interaction
ENSG00000005379	Chromatin interaction
ENSG00000264878	Chromatin interaction
ENSG00000125753	Chromatin interaction
ENSG00000100664	Chromatin interaction
ENSG00000254999	Chromatin interaction
ENSG00000255587	Chromatin interaction
ENSG00000124772	Chromatin interaction
ENSG00000167962	Chromatin interaction
ENSG00000112062	Chromatin interaction
ENSG00000214941	Chromatin interaction
ENSG00000112972	Chromatin interaction
ENSG00000122033	Chromatin interaction
ENSG00000184270	Chromatin interaction
ENSG00000138604	Chromatin interaction
ENSG00000197362	Chromatin interaction
ENSG00000121104	Chromatin interaction
ENSG00000011295	Chromatin interaction
ENSG00000184678	Chromatin interaction
ENSG00000265148	Chromatin interaction
ENSG00000136504	Chromatin interaction
ENSG00000137168	Chromatin interaction
ENSG00000198663	Chromatin interaction
ENSG00000200156	Chromatin interaction
ENSG00000169372	Chromatin interaction
ENSG00000247400	Chromatin interaction
ENSG00000132475	Chromatin interaction
ENSG00000112078	Chromatin interaction
ENSG00000263894	Chromatin interaction
ENSG00000170027	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10214849	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10223366	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10807169	0.83[EUR][1000 genomes]
rs10947613	0.84[CEU][hapmap];0.93[EUR][1000 genomes]
rs11756969	0.85[CEU][hapmap]
rs12153820	0.82[EUR][1000 genomes]
rs12197590	0.83[EUR][1000 genomes]
rs1812018	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs1812019	0.83[EUR][1000 genomes]
rs1812020	0.82[EUR][1000 genomes]
rs2145048	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs4713987	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4713988	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56144242	0.81[EUR][1000 genomes]
rs60627328	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61211228	0.83[EUR][1000 genomes]
rs671516	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6937430	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs73410251	0.93[EUR][1000 genomes]
rs7741888	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs7747264	0.80[EUR][1000 genomes]
rs7755461	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs7759546	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7759778	0.86[CEU][hapmap];0.83[EUR][1000 genomes]
rs7759933	0.83[EUR][1000 genomes]
rs7760766	0.83[EUR][1000 genomes]
rs7767296	0.83[EUR][1000 genomes]
rs7771547	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9296192	0.87[EUR][1000 genomes]
rs9357217	0.82[EUR][1000 genomes]
rs9357219	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs9366907	0.82[EUR][1000 genomes]
rs9366908	0.82[EUR][1000 genomes]
rs9366909	0.83[EUR][1000 genomes]
rs9366911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9368938	0.82[EUR][1000 genomes]
rs9368940	0.83[EUR][1000 genomes]
rs9368942	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9380577	0.82[EUR][1000 genomes]
rs9380580	0.83[EUR][1000 genomes]
rs9380582	0.83[EUR][1000 genomes]
rs9394362	0.83[EUR][1000 genomes]
rs9394363	0.85[CEU][hapmap];0.80[EUR][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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36561000-36562800	Active TSS	HUES6 Cell Line	embryonic stem cell
2	chr6:36561000-36562800	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr6:36561000-36562800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:36561000-36564000	Active TSS	iPS-15b Cell Line	embryonic stem cell
5	chr6:36561000-36564400	Active TSS	Breast Myoepithelial Primary Cells	Breast
6	chr6:36561000-36564600	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr6:36561000-36564600	Active TSS	Thymus	Thymus
8	chr6:36561000-36565000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:36561200-36562600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:36561200-36562600	Active TSS	Fetal Brain Female	brain
11	chr6:36561200-36562600	Active TSS	A549	lung
12	chr6:36561200-36562800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:36561200-36562800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:36561200-36562800	Active TSS	HUES48 Cell Line	embryonic stem cell
15	chr6:36561200-36562800	Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr6:36561200-36563600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:36561200-36563800	Active TSS	H1 Cell Line	embryonic stem cell
18	chr6:36561200-36564200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:36561200-36564200	Active TSS	Psoas Muscle	Psoas
20	chr6:36561200-36564400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:36561200-36564400	Active TSS	Brain Angular Gyrus	brain
22	chr6:36561200-36564400	Active TSS	Brain Anterior Caudate	brain
23	chr6:36561200-36564400	Active TSS	Brain Substantia Nigra	brain
24	chr6:36561200-36564400	Active TSS	Fetal Kidney	kidney
25	chr6:36561200-36564600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:36561200-36564600	Active TSS	H9 Cell Line	embryonic stem cell
27	chr6:36561200-36564600	Active TSS	Brain Cingulate Gyrus	brain
28	chr6:36561200-36564600	Active TSS	Brain Inferior Temporal Lobe	brain
29	chr6:36561200-36564600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr6:36561200-36564600	Active TSS	Duodenum Smooth Muscle	Duodenum
31	chr6:36561200-36564600	Active TSS	Esophagus	oesophagus
32	chr6:36561200-36564600	Active TSS	Left Ventricle	heart
33	chr6:36561200-36564600	Active TSS	Pancreas	Pancrea
34	chr6:36561200-36564600	Active TSS	Small Intestine	intestine
35	chr6:36561200-36564800	Active TSS	Colonic Mucosa	Colon
36	chr6:36561200-36564800	Active TSS	Stomach Mucosa	stomach
37	chr6:36561200-36565000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:36561200-36565000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:36561200-36565000	Active TSS	Colon Smooth Muscle	Colon
40	chr6:36561200-36565000	Active TSS	Pancreatic Islets	Pancreatic Islet
41	chr6:36561200-36565400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
42	chr6:36561200-36566600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr6:36561400-36562600	Active TSS	Fetal Lung	lung
44	chr6:36561400-36563600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:36561400-36564000	Active TSS	Spleen	Spleen
46	chr6:36561400-36564000	Active TSS	GM12878-XiMat	blood
47	chr6:36561400-36564200	Bivalent/Poised TSS	HepG2	liver
48	chr6:36561400-36564400	Active TSS	Sigmoid Colon	Sigmoid Colon
49	chr6:36561400-36564600	Active TSS	Lung	lung
50	chr6:36561400-36564600	Active TSS	Stomach Smooth Muscle	stomach

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