Variant report

Variant	rs59752650
Chromosome Location	chr6:36164068-36164069
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:260)
CpG islands
(count:122)
Chromatin interactive
region (count:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:260 , 50 per page) page: 1 2 3 4 5 6

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:36163994-36165667	IMR90	lung:	n/a	n/a
2	RAD21	chr6:36164046-36164397	GM12878	blood:	n/a	chr6:36164174-36164187 chr6:36164248-36164262
3	RUNX3	chr6:36163750-36164537	GM12878	blood:	n/a	n/a
4	MAX	chr6:36163879-36164692	A549	lung:	n/a	chr6:36164451-36164461 chr6:36164162-36164171
5	RAD21	chr6:36163953-36164467	IMR90	lung:	n/a	chr6:36164174-36164187 chr6:36164248-36164262
6	POLR2A	chr6:36163833-36165846	K562	blood:	n/a	n/a
7	POLR2A	chr6:36163984-36165348	HUVEC	blood vessel:	n/a	n/a
8	RCOR1	chr6:36163929-36164316	K562	blood:	n/a	n/a
9	MYC	chr6:36164044-36164576	MCF-7	breast:	n/a	chr6:36164451-36164461 chr6:36164162-36164171
10	POLR2A	chr6:36163762-36165393	ECC-1	luminal epithelium:	n/a	n/a
11	POLR2A	chr6:36163770-36165445	PANC-1	pancreas:	n/a	n/a
12	POLR2A	chr6:36163977-36165400	Hela-S3	cervix:	n/a	n/a
13	YY1	chr6:36163961-36165258	K562	blood:	n/a	chr6:36165010-36165019 chr6:36165007-36165016 chr6:36164526-36164540 chr6:36164701-36164715
14	ZBTB7A	chr6:36163893-36165546	ECC-1	luminal epithelium:	n/a	chr6:36165054-36165061
15	GATA3	chr6:36163988-36164355	T-47D	breast:	n/a	chr6:36164077-36164087
16	RUNX3	chr6:36163557-36164451	GM12878	blood:	n/a	n/a
17	RAD21	chr6:36164021-36164450	A549	lung:	n/a	chr6:36164174-36164187 chr6:36164248-36164262
18	MAX	chr6:36163895-36164792	ECC-1	luminal epithelium:	n/a	chr6:36164451-36164461 chr6:36164162-36164171
19	MAZ	chr6:36163880-36165266	Hela-S3	cervix:	n/a	chr6:36165011-36165021 chr6:36164451-36164461 chr6:36164162-36164171
20	PAX5	chr6:36164045-36164293	GM12878	blood:	n/a	n/a
21	POLR2A	chr6:36163968-36165403	HUVEC	blood vessel:	n/a	n/a
22	SIN3AK20	chr6:36164010-36164275	SK-N-SH	brain:	n/a	n/a
23	FOXA1	chr6:36163532-36164454	HepG2	liver:	n/a	n/a
24	REST	chr6:36163332-36165694	H1-neurons	neurons:	n/a	n/a
25	JUND	chr6:36163680-36164383	H1-hESC	embryonic stem cell:	n/a	n/a
26	POU2F2	chr6:36163962-36164427	GM12891	blood:	n/a	n/a
27	SMC3	chr6:36164028-36164408	GM12878	blood:	n/a	n/a
28	MAX	chr6:36163853-36165707	K562	blood:	n/a	chr6:36165011-36165021 chr6:36164451-36164461 chr6:36164162-36164171
29	CREB1	chr6:36163586-36165456	HepG2	liver:	n/a	chr6:36164052-36164065
30	CBX3	chr6:36163726-36164276	K562	blood:	n/a	n/a
31	MAFK	chr6:36163974-36164203	Hela-S3	cervix:	n/a	n/a
32	POLR2A	chr6:36163339-36165840	HepG2	liver:	n/a	n/a
33	STAT1	chr6:36163875-36164396	GM12878	blood:	n/a	n/a
34	E2F6	chr6:36163958-36164668	K562	blood:	n/a	chr6:36164381-36164388 chr6:36164381-36164388 chr6:36164380-36164388 chr6:36164237-36164246 chr6:36164381-36164388
35	POLR2A	chr6:36163987-36165374	K562	blood:	n/a	n/a
36	RAD21	chr6:36163905-36164573	MCF-7	breast:	n/a	chr6:36164174-36164187 chr6:36164248-36164262
37	TAF1	chr6:36163926-36165357	H1-hESC	embryonic stem cell:	n/a	n/a
38	TAF1	chr6:36163784-36165406	H1-neurons	neurons:	n/a	n/a
39	POLR2A	chr6:36163796-36165332	MCF-7	breast:	n/a	n/a
40	YY1	chr6:36164061-36164454	GM12891	blood:	n/a	n/a
41	CTCF	chr6:36163936-36164470	K562	blood:	n/a	chr6:36164246-36164264
42	POLR2A	chr6:36163967-36165358	Hela-S3	cervix:	n/a	n/a
43	ELF1	chr6:36163972-36165332	GM12878	blood:	n/a	chr6:36165006-36165018 chr6:36164523-36164532
44	POLR2A	chr6:36163781-36165389	MCF-7	breast:	n/a	n/a
45	CTCF	chr6:36164000-36164150	GM12872	blood:	n/a	n/a
46	CTCF	chr6:36163814-36164428	H1-hESC	embryonic stem cell:	n/a	chr6:36164246-36164264
47	TAF1	chr6:36164065-36165262	K562	blood:	n/a	n/a
48	HCFC1	chr6:36164066-36164457	K562	blood:	n/a	n/a
49	CHD1	chr6:36163975-36164306	GM12878	blood:	n/a	n/a
50	CTCF	chr6:36164044-36164442	H1-hESC	embryonic stem cell:	n/a	chr6:36164246-36164264

(count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:36164058-36164108	A549	lung:	n/a
2	chr6:36164024-36164074	HRCEpiC	kidney:	n/a
3	chr6:36164024-36164074	T-47D	breast:	n/a
4	chr6:36164024-36164074	SK-N-MC	brain:	n/a
5	chr6:36164058-36164108	HepG2	liver:	n/a
6	chr6:36164024-36164074	NB4	blood:	n/a
7	chr6:36164058-36164108	U87	brain:	n/a
8	chr6:36164024-36164074	HCM	heart:	n/a
9	chr6:36164024-36164074	CMK	blood:	n/a
10	chr6:36164058-36164108	SAEC	small airway:	n/a
11	chr6:36164024-36164074	A549	lung:	n/a
12	chr6:36164058-36164108	HCPEpiC	choroid plexus:	n/a
13	chr6:36164024-36164074	AG09309	skin:	n/a
14	chr6:36164024-36164074	NH-A	brain:	n/a
15	chr6:36164058-36164108	NH-A	brain:	n/a
16	chr6:36164058-36164108	Hepatocyte	liver:	n/a
17	chr6:36164058-36164108	IMR90	lung:	fetal
18	chr6:36164024-36164074	HMEC	breast:	n/a
19	chr6:36164058-36164108	NB4	blood:	n/a
20	chr6:36164024-36164074	SKMC	muscle:	n/a
21	chr6:36164024-36164074	AG09319	gingival:	n/a
22	chr6:36164058-36164108	Hela-S3	cervix:	n/a
23	chr6:36164058-36164108	NHDF-neo	bronchial:	n/a
24	chr6:36164024-36164074	H1-hESC	embryonic stem cell:	embryo
25	chr6:36164024-36164074	PANC-1	pancreas:	n/a
26	chr6:36164058-36164108	T-47D	breast:	n/a
27	chr6:36164024-36164074	SK-N-SH_RA	brain:	n/a
28	chr6:36164058-36164108	BE2_C	brain:	n/a
29	chr6:36164058-36164108	SK-N-SH_RA	brain:	n/a
30	chr6:36164058-36164108	HPAEpiC	pulmonary alveolar:	n/a
31	chr6:36164058-36164108	CMK	blood:	n/a
32	chr6:36164024-36164074	NHDF-neo	bronchial:	n/a
33	chr6:36164058-36164108	AG04449	skin:	fetal
34	chr6:36164024-36164074	GM12878	blood:	n/a
35	chr6:36164024-36164074	Caco-2	colon:	n/a
36	chr6:36164024-36164074	MCF10A-Er-Src	breast:	n/a
37	chr6:36164024-36164074	BE2_C	brain:	n/a
38	chr6:36164024-36164074	BJ	skin:	n/a
39	chr6:36164058-36164108	HL-60	blood:	n/a
40	chr6:36164058-36164108	ovcar-3	ovarian:	n/a
41	chr6:36164058-36164108	Jurkat	blood:	n/a
42	chr6:36164024-36164074	GM06990	blood:	n/a
43	chr6:36164024-36164074	HAEpiC	amniotic membrane:	n/a
44	chr6:36164024-36164074	LNCaP	prostate:	n/a
45	chr6:36164058-36164108	HCT-116	colon:	n/a
46	chr6:36164058-36164108	AG09309	skin:	n/a
47	chr6:36164024-36164074	SAEC	small airway:	n/a
48	chr6:36164024-36164074	HEEpiC	esophagus:	n/a
49	chr6:36164024-36164074	HL-60	blood:	n/a
50	chr6:36164058-36164108	HRE	kidney:	n/a

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35992707..35998254-chr6:36162958..36166458,7	K562	blood:
2	chr6:35993989..35997402-chr6:36163188..36166883,8	MCF-7	breast:
3	chr6:36096617..36099142-chr6:36162886..36164936,2	MCF-7	breast:
4	chr6:36152501..36154693-chr6:36162205..36164087,2	MCF-7	breast:
5	chr6:36097672..36103046-chr6:36163327..36166048,5	MCF-7	breast:
6	chr6:36089979..36090632-chr6:36163721..36164348,2	MCF-7	breast:
7	chr6:36098131..36102554-chr6:36163258..36166179,4	K562	blood:
8	chr6:35993265..35998448-chr6:36161633..36166981,11	K562	blood:
9	chr16:68271616..68273577-chr6:36163527..36165172,2	MCF-7	breast:
10	chr6:35994949..35995828-chr6:36163769..36164278,2	K562	blood:
11	chr6:36083240..36096353-chr6:36161490..36168411,30	MCF-7	breast:
12	chr6:36097129..36099054-chr6:36162391..36164603,2	K562	blood:
13	chr6:36105269..36110195-chr6:36162724..36166768,9	MCF-7	breast:
14	chr6:36093292..36096677-chr6:36162699..36165787,6	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf222-1	chr6:36163814-36164288	NONHSAT112212

No data

Variant related genes	Relation type
BRPF3	TF binding region
BRPF3	CpG island
ENSG00000156711	Chromatin interaction
ENSG00000112062	Chromatin interaction
ENSG00000221743	Chromatin interaction
ENSG00000103067	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs55927421	1.00[AFR][1000 genomes]
rs56306008	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57420421	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57747046	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58707214	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59374232	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61105253	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61337522	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905700	0.83[EUR][1000 genomes]
rs73413679	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73413691	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73413692	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73415509	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73415510	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73415515	0.91[AFR][1000 genomes]
rs73415528	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770696	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3355640	chr6:36163199-36165747	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv3418753	chr6:36163624-36166272	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 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	chr6:36163000-36165800	Active TSS	H9 Cell Line	embryonic stem cell
2	chr6:36163200-36165800	Active TSS	HUES6 Cell Line	embryonic stem cell
3	chr6:36163200-36166200	Active TSS	iPS-18 Cell Line	embryonic stem cell
4	chr6:36163400-36164200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
5	chr6:36163400-36164200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
6	chr6:36163400-36164200	Active TSS	Fetal Brain Male	brain
7	chr6:36163400-36164200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
8	chr6:36163400-36164200	Flanking Active TSS	Dnd41	blood
9	chr6:36163400-36164400	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr6:36163400-36164400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
11	chr6:36163400-36165600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:36163400-36165600	Active TSS	Fetal Brain Female	brain
13	chr6:36163400-36165600	Active TSS	Fetal Intestine Large	intestine
14	chr6:36163400-36166000	Active TSS	Pancreatic Islets	Pancreatic Islet
15	chr6:36163400-36166200	Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr6:36163400-36166400	Active TSS	iPS-15b Cell Line	embryonic stem cell
17	chr6:36163400-36166400	Active TSS	Fetal Kidney	kidney
18	chr6:36163600-36164200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
19	chr6:36163600-36164200	Flanking Active TSS	Primary T cells from cord blood	blood
20	chr6:36163600-36164200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
21	chr6:36163600-36164200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
22	chr6:36163600-36164200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
23	chr6:36163600-36164200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:36163600-36164200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:36163600-36164200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:36163600-36164200	Flanking Active TSS	Adipose Nuclei	Adipose
27	chr6:36163600-36164200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:36163600-36164200	Flanking Active TSS	Fetal Muscle Leg	muscle
29	chr6:36163600-36164200	Flanking Active TSS	Fetal Thymus	thymus
30	chr6:36163600-36164200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
31	chr6:36163600-36164200	Flanking Active TSS	GM12878-XiMat	blood
32	chr6:36163600-36164200	Flanking Active TSS	HUVEC	blood vessel
33	chr6:36163600-36164200	Flanking Active TSS	K562	blood
34	chr6:36163600-36164200	Flanking Active TSS	NHEK	skin
35	chr6:36163600-36164200	Flanking Active TSS	Osteobl	bone
36	chr6:36163600-36165400	Active TSS	Placenta Amnion	Placenta Amnion
37	chr6:36163600-36165600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr6:36163600-36165600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr6:36163600-36165600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr6:36163600-36165600	Active TSS	Breast Myoepithelial Primary Cells	Breast
41	chr6:36163600-36165600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr6:36163600-36165600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr6:36163600-36165600	Active TSS	Brain Angular Gyrus	brain
44	chr6:36163600-36165600	Active TSS	Brain Substantia Nigra	brain
45	chr6:36163600-36165600	Active TSS	Colon Smooth Muscle	Colon
46	chr6:36163600-36165600	Active TSS	Fetal Stomach	stomach
47	chr6:36163600-36165600	Active TSS	Psoas Muscle	Psoas
48	chr6:36163600-36165600	Active TSS	Stomach Smooth Muscle	stomach
49	chr6:36163600-36165800	Active TSS	iPS-20b Cell Line	embryonic stem cell
50	chr6:36163600-36165800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links