Variant report

Variant	rs6773913
Chromosome Location	chr3:20131446-20131447
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:20118517..20120600-chr3:20130067..20133062,2	K562	blood:
2	chr3:20131147..20133455-chr3:20135064..20136948,2	K562	blood:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11128935	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11128939	0.95[ASN][1000 genomes]
rs13076325	0.93[ASN][1000 genomes]
rs13076918	0.95[ASN][1000 genomes]
rs13082735	0.88[ASN][1000 genomes]
rs2140084	0.88[AFR][1000 genomes]
rs2293140	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2293141	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2365363	0.87[ASN][1000 genomes]
rs2365365	0.86[ASN][1000 genomes]
rs2365368	0.82[ASN][1000 genomes]
rs2365369	0.82[ASN][1000 genomes]
rs2365785	0.99[ASN][1000 genomes]
rs2365792	0.95[ASN][1000 genomes]
rs2365794	0.94[ASN][1000 genomes]
rs2623077	0.88[ASN][1000 genomes]
rs2886463	0.99[ASN][1000 genomes]
rs3811674	0.80[ASN][1000 genomes]
rs4020098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4241546	0.93[ASN][1000 genomes]
rs4308300	0.82[ASN][1000 genomes]
rs4419399	0.99[ASN][1000 genomes]
rs4420892	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4435661	0.84[EUR][1000 genomes]
rs4586829	0.95[ASN][1000 genomes]
rs4858155	0.94[ASN][1000 genomes]
rs4858762	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4858764	0.94[ASN][1000 genomes]
rs4858766	0.95[ASN][1000 genomes]
rs62241665	0.80[ASN][1000 genomes]
rs62243138	0.81[ASN][1000 genomes]
rs6419825	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6419826	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6763170	0.88[ASN][1000 genomes]
rs6765791	0.88[ASN][1000 genomes]
rs6776870	0.87[ASN][1000 genomes]
rs6777250	0.96[ASN][1000 genomes]
rs6782086	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6783552	0.99[ASN][1000 genomes]
rs6784711	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6788814	0.95[ASN][1000 genomes]
rs6800085	0.87[ASN][1000 genomes]
rs7609821	0.89[ASN][1000 genomes]
rs7622463	0.93[ASN][1000 genomes]
rs7630581	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7647946	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9310606	0.93[ASN][1000 genomes]
rs9310607	0.95[ASN][1000 genomes]
rs9844817	0.95[ASN][1000 genomes]
rs9917785	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[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	esv1825914	chr3:19549859-20137270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	esv1833006	chr3:19562271-20389045	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1010613	chr3:19942032-20461486	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	esv1826030	chr3:19972766-20170581	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	esv1826830	chr3:19982972-20632072	Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	esv1829542	chr3:20009231-20384627	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
7	nsv834627	chr3:20068115-20227975	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv433359	chr3:20090908-20587572	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv470450	chr3:20096735-20389045	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
10	nsv1001006	chr3:20110743-20752628	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
11	nsv536512	chr3:20110743-20752628	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
12	esv1829018	chr3:20116077-20596244	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
13	esv1827700	chr3:20119716-20489086	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
14	esv1830036	chr3:20121828-20278275	Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
15	esv1830599	chr3:20121828-20375643	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20102800-20136800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr3:20116400-20194800	Weak transcription	NHDF-Ad	bronchial
3	chr3:20123000-20131600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:20123000-20137000	Weak transcription	Spleen	Spleen
5	chr3:20123000-20138400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr3:20123000-20140800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:20123000-20153000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr3:20123200-20131600	Weak transcription	Brain Substantia Nigra	brain
9	chr3:20123200-20132400	Weak transcription	Liver	Liver
10	chr3:20123200-20132800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:20123200-20136800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:20123200-20136800	Weak transcription	Brain Angular Gyrus	brain
13	chr3:20123200-20136800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:20123200-20137000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr3:20123200-20137200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:20123200-20137200	Weak transcription	Esophagus	oesophagus
17	chr3:20123200-20137200	Weak transcription	Fetal Heart	heart
18	chr3:20123200-20137200	Weak transcription	Left Ventricle	heart
19	chr3:20123200-20137200	Weak transcription	Psoas Muscle	Psoas
20	chr3:20123200-20137200	Weak transcription	Right Ventricle	heart
21	chr3:20123200-20137400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr3:20123200-20137400	Weak transcription	Gastric	stomach
23	chr3:20123200-20137400	Weak transcription	Pancreas	Pancrea
24	chr3:20123200-20138600	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:20123200-20141000	Weak transcription	Stomach Mucosa	stomach
26	chr3:20123200-20153200	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr3:20128200-20136000	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr3:20128200-20136200	Weak transcription	Fetal Thymus	thymus
29	chr3:20128200-20136400	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr3:20128200-20137400	Weak transcription	Aorta	Aorta
31	chr3:20128200-20137400	Weak transcription	Lung	lung
32	chr3:20128200-20175800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:20129400-20132400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
34	chr3:20129600-20137400	Weak transcription	Ovary	ovary
35	chr3:20130400-20131800	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
36	chr3:20130400-20132200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr3:20130400-20132200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
38	chr3:20130400-20132400	Strong transcription	Primary T cells from cord blood	blood
39	chr3:20130800-20132600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
40	chr3:20131000-20131600	ZNF genes & repeats	Adipose Nuclei	Adipose
41	chr3:20131000-20131600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
42	chr3:20131000-20131800	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:20131000-20131800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr3:20131000-20131800	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
45	chr3:20131000-20132000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
46	chr3:20131000-20132000	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
47	chr3:20131000-20132200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
48	chr3:20131000-20132200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
49	chr3:20131000-20132200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
50	chr3:20131000-20132600	ZNF genes & repeats	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links