Variant report

Variant	rs6854376
Chromosome Location	chr4:174202313-174202314
allele	A/G
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	CTCF	chr4:174202238-174202462	K562	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
2	CTCF	chr4:174202297-174202399	GM12892	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
3	CTCF	chr4:174202130-174202402	H1-hESC	embryonic stem cell:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
4	CTCF	chr4:174202240-174202390	GM12869	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
5	CTCF	chr4:174202307-174202402	GM13977	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
6	CTCF	chr4:174202220-174202370	GM12871	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
7	CTCF	chr4:174202285-174202432	A549	lung:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
8	CTCF	chr4:174202297-174202405	ProgFib	skin:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
9	CTCF	chr4:174202199-174202595	MCF-7	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
10	CTCF	chr4:174202252-174202463	MCF-7	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
11	CTCF	chr4:174202279-174202408	GM19239	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
12	CTCF	chr4:174202249-174202453	GM19238	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
13	CTCF	chr4:174202200-174202350	GM12865	blood:	n/a	n/a
14	CTCF	chr4:174202178-174202529	GM12878	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
15	CTCF	chr4:174202300-174202450	MCF-7	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
16	CTCF	chr4:174202262-174202458	MCF-7	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
17	CTCF	chr4:174202300-174202450	HepG2	liver:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
18	CTCF	chr4:174202240-174202390	GM12870	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
19	RAD21	chr4:174202242-174202411	SK-N-SH_RA	brain:	n/a	chr4:174202336-174202355
20	RCOR1	chr4:174202208-174204112	K562	blood:	n/a	n/a
21	RAD21	chr4:174202122-174202522	MCF-7	breast:	n/a	chr4:174202336-174202355
22	CTCF	chr4:174202280-174202430	SAEC	small airway:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
23	CTCF	chr4:174202300-174202450	GM12874	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
24	CTCF	chr4:174202280-174202430	HPAF	blood vessel:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
25	CTCF	chr4:174202300-174202450	HEEpiC	esophagus:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
26	SMC3	chr4:174202263-174202412	GM12878	blood:	n/a	chr4:174202346-174202354
27	CTCF	chr4:174202260-174202410	AG09319	gingival:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
28	CTCF	chr4:174202272-174202443	GM12878	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
29	RAD21	chr4:174202246-174202411	K562	blood:	n/a	chr4:174202336-174202355
30	RAD21	chr4:174202120-174202480	MCF-7	breast:	n/a	chr4:174202336-174202355
31	ZNF143	chr4:174202195-174202807	K562	blood:	n/a	n/a
32	RAD21	chr4:174202097-174202511	HepG2	liver:	n/a	chr4:174202336-174202355
33	CTCF	chr4:174202291-174202400	Fibrobl	skin:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
34	RAD21	chr4:174202177-174202424	GM12878	blood:	n/a	chr4:174202336-174202355
35	RAD21	chr4:174202159-174202496	H1-hESC	embryonic stem cell:	n/a	chr4:174202336-174202355
36	CTCF	chr4:174202262-174202454	MCF-7	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
37	CTCF	chr4:174202156-174203118	K562	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
38	CTCF	chr4:174202220-174202370	GM12878	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
39	CTCF	chr4:174202300-174202450	HMF	breast:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
40	CTCF	chr4:174202260-174202410	HCPEpiC	choroid plexus:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
41	CTCF	chr4:174202280-174202430	WI-38	lung:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
42	CTCF	chr4:174202280-174202430	K562	blood:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
43	RAD21	chr4:174202213-174202428	SK-N-SH_RA	brain:	n/a	chr4:174202336-174202355
44	CTCF	chr4:174202274-174202429	HepG2	liver:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
45	CTCF	chr4:174202280-174202430	NHEK	skin:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
46	SMC3	chr4:174202200-174202429	K562	blood:	n/a	chr4:174202346-174202354
47	CTCF	chr4:174202240-174202390	HCFaa	heart:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
48	CTCF	chr4:174202240-174202390	AG04450	lung:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356
49	MAZ	chr4:174202204-174202559	K562	blood:	n/a	n/a
50	CTCF	chr4:174202280-174202430	HCM	heart:	n/a	chr4:174202333-174202354 chr4:174202340-174202353 chr4:174202338-174202356

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:173934275..173935026-chr4:174202308..174202822,2	MCF-7	breast:
2	chr4:174190477..174193390-chr4:174201313..174203510,2	K562	blood:

Variant related genes	Relation type
GALNT7	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10005846	1.00[MEX][hapmap]
rs10019585	1.00[MEX][hapmap]
rs11931487	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11933771	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11934228	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs1585948	1.00[MEX][hapmap]
rs17059270	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17059275	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs17059297	0.86[ASN][1000 genomes]
rs2062018	1.00[MEX][hapmap]
rs2306465	1.00[CHB][hapmap]
rs28581661	1.00[ASN][1000 genomes]
rs28605939	1.00[ASN][1000 genomes]
rs34627061	0.86[ASN][1000 genomes]
rs4645199	1.00[CHB][hapmap]
rs4695828	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs4696058	1.00[MEX][hapmap]
rs56774970	0.86[ASN][1000 genomes]
rs59098468	0.86[ASN][1000 genomes]
rs59610063	1.00[ASN][1000 genomes]
rs60501935	1.00[ASN][1000 genomes]
rs61296981	0.86[ASN][1000 genomes]
rs61445751	0.86[ASN][1000 genomes]
rs6814914	0.86[ASN][1000 genomes]
rs6816923	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs6828934	0.86[ASN][1000 genomes]
rs72993773	0.86[ASN][1000 genomes]
rs72994576	0.86[ASN][1000 genomes]
rs72994587	0.86[ASN][1000 genomes]
rs73001541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73001544	1.00[ASN][1000 genomes]
rs73001556	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73003329	1.00[ASN][1000 genomes]
rs73003331	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73872518	0.86[ASN][1000 genomes]
rs7663930	1.00[ASW][hapmap];0.84[LWK][hapmap];0.87[MKK][hapmap];0.88[AFR][1000 genomes]
rs7670317	1.00[MEX][hapmap]
rs7691279	0.86[ASN][1000 genomes]
rs7698574	1.00[MEX][hapmap]
rs965931	1.00[MEX][hapmap]
rs965932	1.00[MEX][hapmap]
rs967379	1.00[CHB][hapmap]

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:174159200-174204600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:174171400-174202600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr4:174186400-174208600	Weak transcription	Esophagus	oesophagus
4	chr4:174186600-174206800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:174186600-174207000	Weak transcription	Ovary	ovary
6	chr4:174186600-174207000	Weak transcription	Small Intestine	intestine
7	chr4:174186600-174209800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr4:174186800-174203600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr4:174187400-174202400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr4:174191800-174204600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr4:174191800-174205000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:174192200-174205000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr4:174194600-174205600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:174195200-174206200	Weak transcription	Fetal Lung	lung
15	chr4:174195200-174207600	Weak transcription	Stomach Mucosa	stomach
16	chr4:174195400-174202600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr4:174196600-174202400	Weak transcription	Aorta	Aorta
18	chr4:174196600-174203200	Weak transcription	Fetal Intestine Large	intestine
19	chr4:174196600-174204400	Weak transcription	Lung	lung
20	chr4:174196800-174202400	Weak transcription	Fetal Muscle Leg	muscle
21	chr4:174196800-174202600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr4:174196800-174203800	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr4:174196800-174210000	Weak transcription	Gastric	stomach
24	chr4:174200200-174202400	Genic enhancers	Fetal Thymus	thymus
25	chr4:174201600-174202400	Strong transcription	Primary B cells from cord blood	blood
26	chr4:174201600-174204000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr4:174201600-174211200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr4:174201800-174202600	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr4:174201800-174204200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
30	chr4:174202000-174202800	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr4:174202000-174202800	Genic enhancers	Dnd41	blood
32	chr4:174202200-174202400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr4:174202200-174202400	Genic enhancers	Thymus	Thymus
34	chr4:174202200-174202600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr4:174202200-174202600	Enhancers	Brain Anterior Caudate	brain
36	chr4:174202200-174202800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr4:174202200-174202800	Strong transcription	Fetal Stomach	stomach
38	chr4:174202200-174202800	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr4:174202200-174203000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
40	chr4:174202200-174203000	ZNF genes & repeats	Fetal Intestine Small	intestine
41	chr4:174202200-174203200	Strong transcription	Primary T cells from cord blood	blood
42	chr4:174202200-174203200	Strong transcription	Pancreas	Pancrea
43	chr4:174202200-174203200	Flanking Active TSS	K562	blood
44	chr4:174202200-174203400	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr4:174202200-174203600	Enhancers	GM12878-XiMat	blood
46	chr4:174202200-174203800	Enhancers	Primary B cells from peripheral blood	blood
47	chr4:174202200-174204000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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