Variant report

Variant	rs1966182
Chromosome Location	chr20:23586559-23586560
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RAD21	chr20:23586513-23587004	HepG2	liver:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr20:23586547-23586597	HCM	heart:	n/a
2	chr20:23586547-23586597	NHBE	bronchial:	n/a
3	chr20:23586547-23586597	IMR90	lung:	fetal
4	chr20:23586547-23586597	Caco-2	colon:	n/a
5	chr20:23586547-23586597	HL-60	blood:	n/a
6	chr20:23586547-23586597	HUVEC	blood vessel:	n/a
7	chr20:23586547-23586597	ECC-1	luminal epithelium:	n/a
8	chr20:23586547-23586597	HAEpiC	amniotic membrane:	n/a
9	chr20:23586547-23586597	AG04449	skin:	fetal
10	chr20:23586547-23586597	A549	lung:	n/a
11	chr20:23586547-23586597	HPAEpiC	pulmonary alveolar:	n/a
12	chr20:23586547-23586597	HCF	heart:	n/a
13	chr20:23586547-23586597	LNCaP	prostate:	n/a
14	chr20:23586547-23586597	T-47D	breast:	n/a
15	chr20:23586547-23586597	HRCEpiC	kidney:	n/a
16	chr20:23586547-23586597	PrEC	prostate:	n/a
17	chr20:23586547-23586597	AoSMC	blood vessel:	n/a
18	chr20:23586547-23586597	Jurkat	blood:	n/a
19	chr20:23586547-23586597	GM12892	blood:	n/a
20	chr20:23586547-23586597	HCT-116	colon:	n/a
21	chr20:23586547-23586597	SAEC	small airway:	n/a
22	chr20:23586547-23586597	HIPEpiC	eye:	n/a
23	chr20:23586547-23586597	HNPCEpiC	eye:	n/a
24	chr20:23586547-23586597	GM12891	blood:	n/a
25	chr20:23586547-23586597	SKMC	muscle:	n/a
26	chr20:23586547-23586597	NB4	blood:	n/a
27	chr20:23586547-23586597	GM06990	blood:	n/a
28	chr20:23586547-23586597	GM19239	blood:	n/a
29	chr20:23586547-23586597	MCF-7	breast:	n/a
30	chr20:23586547-23586597	GM12878	blood:	n/a
31	chr20:23586547-23586597	CMK	blood:	n/a
32	chr20:23586547-23586597	HMEC	breast:	n/a
33	chr20:23586547-23586597	HRPEpiC	eye:	n/a
34	chr20:23586547-23586597	NH-A	brain:	n/a
35	chr20:23586547-23586597	Hela-S3	cervix:	n/a
36	chr20:23586547-23586597	HCPEpiC	choroid plexus:	n/a
37	chr20:23586547-23586597	SK-N-SH_RA	brain:	n/a
38	chr20:23586547-23586597	ProgFib	skin:	n/a
39	chr20:23586547-23586597	HEK293	kidney:	embryo
40	chr20:23586547-23586597	AG09319	gingival:	n/a
41	chr20:23586547-23586597	K562	blood:	n/a
42	chr20:23586547-23586597	BJ	skin:	n/a
43	chr20:23586547-23586597	H1-hESC	embryonic stem cell:	embryo
44	chr20:23586547-23586597	PANC-1	pancreas:	n/a
45	chr20:23586547-23586597	SK-N-SH	brain:	n/a
46	chr20:23586547-23586597	U87	brain:	n/a
47	chr20:23586547-23586597	SK-N-MC	brain:	n/a
48	chr20:23586547-23586597	AG10803	skin:	n/a
49	chr20:23586547-23586597	HEEpiC	esophagus:	n/a
50	chr20:23586547-23586597	NT2-D1	testis:	n/a

No data

Variant related genes	Relation type
CST9	TF binding region
CST9	CpG island

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs16985393	1.00[GIH][hapmap]
rs2405390	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs2405391	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs3004146	1.00[CHB][hapmap]
rs56326647	0.86[EUR][1000 genomes]
rs57526954	1.00[EUR][1000 genomes]
rs6048959	1.00[GIH][hapmap]
rs60569976	1.00[EUR][1000 genomes]
rs6106686	0.82[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114187	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114188	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114193	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114194	0.90[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6515370	0.81[ASW][hapmap];1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs73902104	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[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	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer 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 miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23583400-23594000	Weak transcription	Right Atrium	heart
2	chr20:23583600-23587600	Weak transcription	Spleen	Spleen
3	chr20:23584000-23587000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr20:23584000-23587400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr20:23584000-23587400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr20:23584200-23586600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr20:23584200-23587400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr20:23585000-23588800	Enhancers	Fetal Thymus	thymus
9	chr20:23586000-23588600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr20:23586200-23587200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr20:23586400-23586800	Bivalent Enhancer	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links