Variant report

Variant	rs3786820
Chromosome Location	chr19:21105483-21105484
allele	C/G
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	RFX5	chr19:21105216-21106634	SK-N-SH	brain:	n/a	chr19:21105974-21105983

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr19:21105452-21105502	MCF-7	breast:	n/a
2	chr19:21105452-21105502	GM12891	blood:	n/a
3	chr19:21105452-21105502	SK-N-SH_RA	brain:	n/a
4	chr19:21105452-21105502	AG09309	skin:	n/a
5	chr19:21105452-21105502	PFSK-1	brain:	n/a
6	chr19:21105452-21105502	NB4	blood:	n/a
7	chr19:21105452-21105502	PANC-1	pancreas:	n/a
8	chr19:21105452-21105502	RPTEC	kidney:	n/a
9	chr19:21105452-21105502	ECC-1	luminal epithelium:	n/a
10	chr19:21105452-21105502	HepG2	liver:	n/a
11	chr19:21105452-21105502	HRE	kidney:	n/a
12	chr19:21105452-21105502	NHDF-neo	bronchial:	n/a
13	chr19:21105452-21105502	ovcar-3	ovarian:	n/a
14	chr19:21105452-21105502	BJ	skin:	n/a
15	chr19:21105452-21105502	Hepatocyte	liver:	n/a
16	chr19:21105452-21105502	IMR90	lung:	fetal
17	chr19:21105452-21105502	HRPEpiC	eye:	n/a
18	chr19:21105452-21105502	HCM	heart:	n/a
19	chr19:21105452-21105502	GM12892	blood:	n/a
20	chr19:21105452-21105502	HMEC	breast:	n/a
21	chr19:21105452-21105502	HRCEpiC	kidney:	n/a
22	chr19:21105452-21105502	HAEpiC	amniotic membrane:	n/a
23	chr19:21105452-21105502	K562	blood:	n/a
24	chr19:21105452-21105502	HUVEC	blood vessel:	n/a
25	chr19:21105452-21105502	HCF	heart:	n/a
26	chr19:21105452-21105502	HIPEpiC	eye:	n/a
27	chr19:21105452-21105502	HEK293	kidney:	embryo
28	chr19:21105452-21105502	MCF10A-Er-Src	breast:	n/a
29	chr19:21105452-21105502	NH-A	brain:	n/a
30	chr19:21105452-21105502	HNPCEpiC	eye:	n/a
31	chr19:21105452-21105502	AG04450	lung:	fetal
32	chr19:21105452-21105502	HEEpiC	esophagus:	n/a
33	chr19:21105452-21105502	SAEC	small airway:	n/a
34	chr19:21105452-21105502	LNCaP	prostate:	n/a
35	chr19:21105452-21105502	HCT-116	colon:	n/a
36	chr19:21105452-21105502	AoSMC	blood vessel:	n/a
37	chr19:21105452-21105502	HPAEpiC	pulmonary alveolar:	n/a
38	chr19:21105452-21105502	NHBE	bronchial:	n/a
39	chr19:21105452-21105502	SK-N-MC	brain:	n/a
40	chr19:21105452-21105502	Jurkat	blood:	n/a
41	chr19:21105452-21105502	H1-hESC	embryonic stem cell:	embryo
42	chr19:21105452-21105502	T-47D	breast:	n/a
43	chr19:21105452-21105502	AG09319	gingival:	n/a
44	chr19:21105452-21105502	PrEC	prostate:	n/a
45	chr19:21105452-21105502	A549	lung:	n/a
46	chr19:21105452-21105502	GM19239	blood:	n/a
47	chr19:21105452-21105502	Hela-S3	cervix:	n/a
48	chr19:21105452-21105502	AG10803	skin:	n/a
49	chr19:21105452-21105502	AG04449	skin:	fetal
50	chr19:21105452-21105502	ProgFib	skin:	n/a

No data

Variant related genes	Relation type
ZNF85	TF binding region
ZNF85	CpG island

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12052051	1.00[AMR][1000 genomes]
rs12052100	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12052134	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12052185	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12232811	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12232812	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12232827	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12232851	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59475509	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67493653	1.00[ASN][1000 genomes]
rs7245474	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7248686	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752729	chr19:20818886-21169554	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1062776	chr19:20818886-21273361	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv932110	chr19:20818886-21278952	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	esv2763043	chr19:20818886-21290543	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1063954	chr19:21000562-21177577	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv578946	chr19:21014403-21151796	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	esv3385528	chr19:21030777-21495566	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
8	nsv960809	chr19:21031718-21121801	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1055738	chr19:21040181-21109969	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv522090	chr19:21041350-21109784	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv578947	chr19:21041350-21109784	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv817536	chr19:21041855-21348237	Strong transcription Enhancers Genic enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
13	nsv1062802	chr19:21053665-21109969	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv1067455	chr19:21053665-21141787	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
15	nsv1058430	chr19:21063759-21114796	Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21103400-21106000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr19:21105000-21105600	Enhancers	Dnd41	blood
3	chr19:21105200-21105600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr19:21105200-21105600	Enhancers	Primary B cells from cord blood	blood
5	chr19:21105200-21105600	Enhancers	Primary hematopoietic stem cells	blood
6	chr19:21105200-21105600	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr19:21105200-21105600	Enhancers	Pancreas	Pancrea
8	chr19:21105200-21105800	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr19:21105200-21105800	Enhancers	Primary T cells fromperipheralblood	blood
10	chr19:21105200-21105800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr19:21105200-21105800	Enhancers	Fetal Muscle Leg	muscle
12	chr19:21105200-21105800	Enhancers	Right Atrium	heart
13	chr19:21105200-21106000	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr19:21105200-21106000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr19:21105200-21106600	Active TSS	Primary T killer memory cells from peripheral blood	blood
16	chr19:21105400-21105600	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr19:21105400-21105600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
18	chr19:21105400-21105600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr19:21105400-21105600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr19:21105400-21105600	Enhancers	Muscle Satellite Cultured Cells	--
21	chr19:21105400-21105800	Enhancers	Primary T cells from cord blood	blood
22	chr19:21105400-21105800	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr19:21105400-21105800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links