Variant report

Variant	rs11153168
Chromosome Location	chr6:109629420-109629421
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ATF3	chr6:109629213-109629644	K562	blood:	n/a	n/a
2	CBX3	chr6:109629106-109629725	K562	blood:	n/a	n/a
3	EP300	chr6:109629158-109629683	K562	blood:	n/a	n/a
4	FOS	chr6:109629256-109629708	MCF10A-Er-Src	breast:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626
5	MAX	chr6:109629308-109629666	Hela-S3	cervix:	n/a	n/a
6	YY1	chr6:109629181-109629640	K562	blood:	n/a	n/a
7	EP300	chr6:109629135-109629666	K562	blood:	n/a	n/a
8	TBL1XR1	chr6:109629049-109629627	K562	blood:	n/a	n/a
9	EGR1	chr6:109629170-109629583	K562	blood:	n/a	n/a
10	SMC3	chr6:109629209-109629618	Hela-S3	cervix:	n/a	n/a
11	HDAC2	chr6:109629239-109629655	K562	blood:	n/a	n/a
12	PML	chr6:109629172-109629718	K562	blood:	n/a	n/a
13	CTCF	chr6:109629308-109629584	K562	blood:	n/a	n/a
14	MYC	chr6:109629231-109629686	K562	blood:	n/a	n/a
15	CEBPB	chr6:109629265-109629677	K562	blood:	n/a	n/a
16	FOSL1	chr6:109629156-109629669	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626 chr6:109629442-109629453
17	TRIM28	chr6:109629152-109629782	K562	blood:	n/a	n/a
18	CEBPB	chr6:109629166-109629766	K562	blood:	n/a	n/a
19	ARID3A	chr6:109629205-109629638	K562	blood:	n/a	n/a
20	MYC	chr6:109629328-109629639	NB4	blood:	n/a	n/a
21	JUND	chr6:109629202-109629713	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626
22	CCNT2	chr6:109629222-109629662	K562	blood:	n/a	n/a
23	USF1	chr6:109629139-109629662	K562	blood:	n/a	n/a
24	CEBPD	chr6:109629137-109629784	K562	blood:	n/a	n/a
25	FOSL2	chr6:109629292-109629513	A549	lung:	n/a	chr6:109629443-109629452 chr6:109629444-109629453
26	CEBPB	chr6:109629323-109629684	Hela-S3	cervix:	n/a	n/a
27	POLR2A	chr6:109629347-109629551	K562	blood:	n/a	n/a
28	MYC	chr6:109629307-109629665	MCF10A-Er-Src	breast:	n/a	n/a
29	MXI1	chr6:109629271-109629576	K562	blood:	n/a	n/a
30	STAT5A	chr6:109629108-109629717	K562	blood:	n/a	n/a
31	TEAD4	chr6:109629036-109629780	K562	blood:	n/a	n/a
32	JUN	chr6:109629205-109629683	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626
33	MAFF	chr6:109629200-109629715	K562	blood:	n/a	n/a
34	STAT5A	chr6:109629122-109629639	K562	blood:	n/a	n/a
35	USF2	chr6:109629271-109629631	Hela-S3	cervix:	n/a	n/a
36	SMC3	chr6:109629311-109629632	K562	blood:	n/a	n/a
37	STAT3	chr6:109629380-109629665	MCF10A-Er-Src	breast:	n/a	n/a
38	JUN	chr6:109629208-109629670	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626
39	USF2	chr6:109629270-109629525	K562	blood:	n/a	n/a
40	MYC	chr6:109629228-109629654	K562	blood:	n/a	n/a
41	JUN	chr6:109629230-109629699	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626
42	RCOR1	chr6:109629400-109629632	Hela-S3	cervix:	n/a	n/a
43	USF1	chr6:109629195-109629655	K562	blood:	n/a	n/a
44	ZC3H11A	chr6:109629345-109629565	K562	blood:	n/a	n/a
45	POLR2A	chr6:109629187-109629630	K562	blood:	n/a	n/a
46	STAT3	chr6:109629353-109629625	Hela-S3	cervix:	n/a	n/a
47	FOSL1	chr6:109629276-109629626	K562	blood:	n/a	chr6:109629443-109629452 chr6:109629444-109629453 chr6:109629615-109629626 chr6:109629442-109629453
48	STAT3	chr6:109629302-109629706	MCF10A-Er-Src	breast:	n/a	n/a
49	GATA2	chr6:109629177-109629683	K562	blood:	n/a	chr6:109629462-109629473
50	RCOR1	chr6:109628071-109629737	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109627945..109629933-chr6:109634086..109636945,2	MCF-7	breast:
2	chr6:109628891..109631970-chr6:109702157..109703919,3	K562	blood:
3	chr6:109556933..109558499-chr6:109629340..109630936,2	K562	blood:
4	chr6:109624351..109631970-chr6:109702157..109706422,11	K562	blood:
5	chr6:109626552..109629448-chr6:109691931..109694820,2	K562	blood:

Variant related genes	Relation type
CCDC162P	TF binding region
ENSG00000135535	Chromatin interaction
ENSG00000243587	Chromatin interaction
ENSG00000260273	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1008084	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11153165	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153166	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153167	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751953	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757567	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11961369	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11966072	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1260593	0.80[CEU][hapmap]
rs1260595	0.81[CEU][hapmap]
rs12664455	0.95[ASN][1000 genomes]
rs13191948	0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs13195500	0.87[EUR][1000 genomes]
rs13196219	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196590	0.87[CEU][hapmap]
rs13200047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13202939	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs13203155	0.88[ASN][1000 genomes]
rs13219432	0.94[ASN][1000 genomes]
rs13219561	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1341271	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1546723	0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2884036	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs351720	0.81[CEU][hapmap]
rs351721	0.81[CEU][hapmap]
rs351723	0.81[CEU][hapmap]
rs351724	0.88[CEU][hapmap]
rs351725	0.88[CEU][hapmap]
rs351726	0.81[CEU][hapmap]
rs351727	0.81[CEU][hapmap]
rs351728	0.87[CEU][hapmap]
rs351730	0.81[CEU][hapmap]
rs351736	0.85[CEU][hapmap]
rs351737	0.84[CEU][hapmap]
rs35757653	0.88[EUR][1000 genomes]
rs35849756	0.88[EUR][1000 genomes]
rs386696	0.81[CEU][hapmap]
rs396000	0.80[CEU][hapmap]
rs412754	0.81[CEU][hapmap]
rs419106	0.80[CEU][hapmap]
rs4301336	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs442405	0.80[CEU][hapmap]
rs4548045	0.91[ASN][1000 genomes]
rs455839	0.81[CEU][hapmap]
rs458185	0.81[CEU][hapmap]
rs459956	0.80[CEU][hapmap]
rs463916	0.81[CEU][hapmap]
rs5005289	0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs55677234	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs566164	0.87[CEU][hapmap]
rs59272337	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59502176	0.88[EUR][1000 genomes]
rs6568569	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6568570	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6568571	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6919423	0.87[CEU][hapmap]
rs6925339	0.84[CEU][hapmap]
rs7748918	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7773490	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374076	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374080	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9374081	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386779	0.91[ASN][1000 genomes]
rs9386795	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9386796	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9400265	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400272	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9400273	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9400276	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs9480924	0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9487023	0.86[ASN][1000 genomes]
rs9487048	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9487049	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487051	0.94[ASN][1000 genomes]
rs9487052	0.91[AFR][1000 genomes];0.95[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	nsv527719	chr6:109624937-109631609	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109619400-109638000	Weak transcription	HepG2	liver
2	chr6:109621400-109629600	Enhancers	Primary hematopoietic stem cells	blood
3	chr6:109621600-109634000	Weak transcription	Fetal Muscle Trunk	muscle
4	chr6:109624600-109631000	Enhancers	Fetal Intestine Small	intestine
5	chr6:109625800-109634200	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:109626200-109629600	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:109626200-109631800	Weak transcription	Placenta	Placenta
8	chr6:109626200-109634200	Weak transcription	Psoas Muscle	Psoas
9	chr6:109626200-109638800	Weak transcription	Thymus	Thymus
10	chr6:109627000-109630800	Enhancers	Fetal Intestine Large	intestine
11	chr6:109627600-109630800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:109627600-109639000	Weak transcription	Left Ventricle	heart
13	chr6:109628000-109629600	Enhancers	Hela-S3	cervix
14	chr6:109628000-109630600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:109628200-109629600	Enhancers	Aorta	Aorta
16	chr6:109628200-109629800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:109628400-109630000	Enhancers	Stomach Mucosa	stomach
18	chr6:109628400-109630000	Enhancers	NHDF-Ad	bronchial
19	chr6:109629000-109630000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:109629200-109629600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr6:109629200-109629600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:109629200-109629600	Enhancers	Adipose Nuclei	Adipose
23	chr6:109629200-109629600	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr6:109629200-109629600	Enhancers	Gastric	stomach
25	chr6:109629200-109629600	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr6:109629200-109629600	Flanking Active TSS	K562	blood
27	chr6:109629200-109629800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr6:109629200-109630000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:109629200-109630000	Enhancers	Osteobl	bone
30	chr6:109629200-109630200	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr6:109629400-109629600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr6:109629400-109629600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:109629400-109629600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:109629400-109629800	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:109629400-109629800	Enhancers	HSMM	muscle

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