Variant report

Variant	rs527813980
Chromosome Location	chr6:36986712-36986713
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:135)
CpG islands
(count:0)
Chromatin interactive
region (count:32)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:135 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr6:36986002-36986764	HepG2	liver:	n/a	n/a
2	RCOR1	chr6:36985940-36987551	Hela-S3	cervix:	n/a	n/a
3	CTCF	chr6:36986334-36986751	A549	lung:	n/a	n/a
4	SPI1	chr6:36986519-36986935	K562	blood:	n/a	chr6:36986816-36986829
5	CTCF	chr6:36985780-36987455	MCF-7	breast:	n/a	chr6:36986115-36986133
6	CTCF	chr6:36985918-36986916	HepG2	liver:	n/a	chr6:36986115-36986133
7	TEAD4	chr6:36985911-36987391	ECC-1	luminal epithelium:	n/a	n/a
8	RCOR1	chr6:36985982-36986802	K562	blood:	n/a	n/a
9	ZNF263	chr6:36986006-36987195	HEK293-T-REx	kidney:	n/a	chr6:36986371-36986392 chr6:36986270-36986279 chr6:36986267-36986276
10	RAD21	chr6:36985653-36987106	HCT-116	colon:	n/a	chr6:36986113-36986132
11	STAT3	chr6:36986062-36986726	Hela-S3	cervix:	n/a	n/a
12	NFYA	chr6:36985843-36986874	Hela-S3	cervix:	n/a	n/a
13	CTCF	chr6:36985983-36986715	Medullo	brain:	n/a	chr6:36986115-36986133
14	FOS	chr6:36986439-36986725	MCF10A-Er-Src	breast:	n/a	n/a
15	RAD21	chr6:36985858-36986915	A549	lung:	n/a	chr6:36986113-36986132
16	RAD21	chr6:36985896-36986848	K562	blood:	n/a	chr6:36986113-36986132
17	CTCF	chr6:36985850-36986840	K562	blood:	n/a	chr6:36986115-36986133
18	SMC3	chr6:36985928-36986922	HepG2	liver:	n/a	n/a
19	RAD21	chr6:36985928-36986746	A549	lung:	n/a	chr6:36986113-36986132
20	NFIC	chr6:36985952-36986729	GM12878	blood:	n/a	n/a
21	CTCF	chr6:36986361-36986730	Hela-S3	cervix:	n/a	n/a
22	MYC	chr6:36985956-36986712	K562	blood:	n/a	n/a
23	RAD21	chr6:36985883-36986785	H1-hESC	embryonic stem cell:	n/a	chr6:36986113-36986132
24	SMC3	chr6:36985882-36986811	GM12878	blood:	n/a	n/a
25	CTCF	chr6:36985858-36986900	K562	blood:	n/a	chr6:36986115-36986133
26	ZNF143	chr6:36985949-36986770	K562	blood:	n/a	n/a
27	FOXM1	chr6:36985707-36986800	GM12878	blood:	n/a	n/a
28	NFIC	chr6:36985983-36987395	ECC-1	luminal epithelium:	n/a	chr6:36987057-36987073 chr6:36987013-36987030
29	CTCF	chr6:36985678-36987167	HCT-116	colon:	n/a	chr6:36986115-36986133
30	MAX	chr6:36985925-36986746	NB4	blood:	n/a	n/a
31	RAD21	chr6:36986414-36986751	K562	blood:	n/a	n/a
32	NFIC	chr6:36985994-36986769	HepG2	liver:	n/a	n/a
33	CTCF	chr6:36986580-36986730	A549	lung:	n/a	n/a
34	ZNF143	chr6:36985754-36986747	Hela-S3	cervix:	n/a	n/a
35	RAD21	chr6:36985830-36986856	MCF-7	breast:	n/a	chr6:36986113-36986132
36	RAD21	chr6:36985836-36986830	HepG2	liver:	n/a	chr6:36986113-36986132
37	BCLAF1	chr6:36985916-36986759	GM12878	blood:	n/a	n/a
38	CTCF	chr6:36986318-36986785	A549	lung:	n/a	n/a
39	BCLAF1	chr6:36985945-36986799	GM12878	blood:	n/a	n/a
40	CTCF	chr6:36985771-36986875	K562	blood:	n/a	chr6:36986115-36986133
41	RAD21	chr6:36985845-36986861	Hela-S3	cervix:	n/a	chr6:36986113-36986132
42	RAD21	chr6:36985701-36987052	HCT-116	colon:	n/a	chr6:36986113-36986132
43	CTCF	chr6:36985989-36986719	LNCaP	prostate:	n/a	chr6:36986115-36986133
44	PML	chr6:36985795-36986785	GM12878	blood:	n/a	n/a
45	CTCF	chr6:36985904-36986833	GM12878	blood:	n/a	chr6:36986115-36986133
46	CTCF	chr6:36985865-36986818	T-47D	breast:	n/a	chr6:36986115-36986133
47	ZNF143	chr6:36985923-36986790	GM12878	blood:	n/a	n/a
48	TBL1XR1	chr6:36985780-36986730	K562	blood:	n/a	n/a
49	RFX5	chr6:36985984-36986721	HepG2	liver:	n/a	n/a
50	RAD21	chr6:36985873-36986825	GM12878	blood:	n/a	chr6:36986113-36986132

No data

(count:32 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36985829..36988521-chr6:36988646..36990558,2	K562	blood:
2	chr6:36985713..36987315-chr6:37177177..37178923,41	K562	blood:
3	chr6:36926516..36929397-chr6:36985217..36986948,2	K562	blood:
4	chr6:36886183..36886832-chr6:36986137..36986795,2	MCF-7	breast:
5	chr6:36985833..36987427-chr6:37139677..37140666,12	MCF-7	breast:
6	chr6:36985689..36987067-chr6:37174835..37176439,10	MCF-7	breast:
7	chr6:36831717..36834035-chr6:36985083..36987828,2	K562	blood:
8	chr6:36984736..36987348-chr6:37138212..37139729,2	K562	blood:
9	chr6:36984774..36987733-chr6:36993476..36997065,5	K562	blood:
10	chr6:36851998..36854194-chr6:36984664..36987550,2	K562	blood:
11	chr6:36947258..36950041-chr6:36986048..36987573,2	MCF-7	breast:
12	chr6:36986055..36987477-chr6:37177799..37178902,22	MCF-7	breast:
13	chr6:36985904..36987716-chr6:37141908..37143451,2	MCF-7	breast:
14	chr6:36985258..36986956-chr6:37321041..37322902,2	MCF-7	breast:
15	chr6:36986301..36987208-chr6:37139732..37140870,3	MCF-7	breast:
16	chr6:36881502..36882020-chr6:36986068..36986734,2	MCF-7	breast:
17	chr6:36985701..36987115-chr6:37175477..37176997,13	K562	blood:
18	chr6:36986126..36987117-chr6:37176530..37177578,3	MCF-7	breast:
19	chr6:36985644..36987482-chr6:37177455..37178899,11	MCF-7	breast:
20	chr6:36928588..36930558-chr6:36986253..36988587,2	K562	blood:
21	chr6:36986123..36987013-chr6:36995872..36996986,3	K562	blood:
22	chr6:36733415..36734583-chr6:36985207..36986995,7	MCF-7	breast:
23	chr6:36986109..36986997-chr6:37018972..37019835,3	MCF-7	breast:
24	chr6:36952434..36955977-chr6:36983476..36987276,5	MCF-7	breast:
25	chr6:36852005..36855458-chr6:36984429..36987560,3	K562	blood:
26	chr6:36985845..36988567-chr6:37138212..37140631,3	K562	blood:
27	chr6:36951647..36954567-chr6:36984468..36987638,6	K562	blood:
28	chr6:36980695..36984451-chr6:36985282..36988423,5	K562	blood:
29	chr6:36986111..36987939-chr6:37176127..37178450,2	MCF-7	breast:
30	chr6:36985158..36987310-chr6:37189028..37190861,2	K562	blood:
31	chr6:36985952..36987180-chr6:37139557..37141095,24	K562	blood:
32	chr6:36986227..36987023-chr6:37179191..37179864,2	MCF-7	breast:

No data

Variant related genes	Relation type
FGD2	TF binding region
ENSG00000198663	Chromatin interaction
ENSG00000146192	Chromatin interaction
ENSG00000112130	Chromatin interaction
ENSG00000137193	Chromatin interaction
ENSG00000137409	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv518386	chr6:36942746-37037670	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv885816	chr6:36965099-36999682	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv515488	chr6:36978745-36989587	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	esv3436059	chr6:36986674-36990872	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36974200-36987000	Weak transcription	Right Atrium	heart
2	chr6:36975400-36988600	Weak transcription	Gastric	stomach
3	chr6:36975600-36988200	Weak transcription	Esophagus	oesophagus
4	chr6:36975600-36989600	Weak transcription	Thymus	Thymus
5	chr6:36983400-36995000	Weak transcription	Lung	lung
6	chr6:36984600-36987200	Enhancers	Fetal Thymus	thymus
7	chr6:36984800-36986800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr6:36984800-36987000	Enhancers	Brain Hippocampus Middle	brain
9	chr6:36984800-36987200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:36984800-36987200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:36984800-36989000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr6:36985000-36986800	Enhancers	Brain Substantia Nigra	brain
13	chr6:36985200-36987000	Enhancers	Fetal Muscle Leg	muscle
14	chr6:36985200-36987000	Enhancers	Placenta	Placenta
15	chr6:36985200-36987200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:36985200-36987400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:36985200-36987400	Enhancers	Brain Cingulate Gyrus	brain
18	chr6:36985200-36988200	Genic enhancers	Primary B cells from peripheral blood	blood
19	chr6:36985400-36987000	Genic enhancers	Primary monocytes fromperipheralblood	blood
20	chr6:36985400-36987000	Genic enhancers	Monocytes-CD14+_RO01746	blood
21	chr6:36985400-36987200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:36985400-36987200	Enhancers	Brain Angular Gyrus	brain
23	chr6:36985400-36987400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:36985400-36987400	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr6:36985400-36987400	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr6:36985400-36987400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:36985400-36987400	Enhancers	Fetal Muscle Trunk	muscle
28	chr6:36985400-36987600	Enhancers	Brain Germinal Matrix	brain
29	chr6:36985600-36987000	Enhancers	Fetal Intestine Large	intestine
30	chr6:36985600-36987000	Enhancers	Rectal Mucosa Donor 29	rectum
31	chr6:36985600-36987000	Genic enhancers	GM12878-XiMat	blood
32	chr6:36985600-36987200	Genic enhancers	Primary B cells from cord blood	blood
33	chr6:36985600-36987200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:36985600-36987200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
35	chr6:36985600-36987200	Enhancers	Brain Anterior Caudate	brain
36	chr6:36985600-36987200	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:36985600-36987200	Enhancers	HepG2	liver
38	chr6:36985600-36987200	Enhancers	K562	blood
39	chr6:36985600-36987400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:36985600-36987400	Enhancers	Primary T cells fromperipheralblood	blood
41	chr6:36985600-36987400	Enhancers	Primary hematopoietic stem cells	blood
42	chr6:36985600-36987400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:36985600-36987400	Enhancers	Primary T helper cells PMA-I stimulated	--
44	chr6:36985600-36987400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
45	chr6:36985600-36987400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr6:36985600-36987400	Enhancers	Colon Smooth Muscle	Colon
47	chr6:36985600-36987400	Enhancers	Fetal Stomach	stomach
48	chr6:36985600-36987600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:36985600-36987600	Enhancers	HMEC	breast
50	chr6:36985600-36988800	Enhancers	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links