Variant report

Variant	rs6804963
Chromosome Location	chr3:99990891-99990892
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99754570..99756675-chr3:99990490..99992538,2	K562	blood:
2	chr3:99988882..99991761-chr3:100052914..100055233,2	K562	blood:
3	chr3:99981876..99985966-chr3:99986124..99992664,8	K562	blood:
4	chr3:99977508..99981820-chr3:99989170..99991493,4	MCF-7	breast:
5	chr3:99990146..99991860-chr3:100006662..100009109,2	K562	blood:

Variant related genes	Relation type
ENSG00000036054	Chromatin interaction
ENSG00000114021	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10936157	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs1214371	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1609481	0.95[CHB][hapmap]
rs2028494	0.95[CHB][hapmap];0.88[CHD][hapmap]
rs2029162	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2316246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs277637	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs277655	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs277656	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs277660	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34547730	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35805111	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35939236	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs36013739	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3772698	0.95[CHB][hapmap];0.86[CHD][hapmap]
rs384528	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3862050	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4345098	0.85[ASN][1000 genomes]
rs4552390	0.91[CHB][hapmap]
rs4928118	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4928119	1.00[CHB][hapmap];0.90[CHD][hapmap];0.81[ASN][1000 genomes]
rs4928169	0.95[CHB][hapmap];0.86[CHD][hapmap]
rs57048357	1.00[AMR][1000 genomes]
rs967608	0.95[CHB][hapmap]
rs9810704	0.81[ASW][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs9863237	0.83[ASN][1000 genomes]
rs9968163	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[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	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active 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	17 gene(s)	inside rSNPs	diseases
3	nsv869690	chr3:99984442-100054949	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99980600-100037200	Weak transcription	Spleen	Spleen
2	chr3:99980600-100053200	Weak transcription	Gastric	stomach
3	chr3:99981000-99996400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr3:99981200-99993200	Weak transcription	Primary B cells from cord blood	blood
5	chr3:99981200-99995400	Weak transcription	Brain Angular Gyrus	brain
6	chr3:99981200-99997800	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr3:99981200-99998400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr3:99981200-99998600	Weak transcription	Primary B cells from peripheral blood	blood
9	chr3:99981200-99998600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:99981200-100004800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr3:99981200-100030800	Weak transcription	Fetal Heart	heart
12	chr3:99981400-99998400	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr3:99981400-100004400	Weak transcription	Lung	lung
14	chr3:99982400-100005400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:99982600-99998800	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr3:99982800-100001400	Weak transcription	Stomach Smooth Muscle	stomach
17	chr3:99983000-99995400	Weak transcription	Brain Hippocampus Middle	brain
18	chr3:99983200-99999600	Weak transcription	Fetal Intestine Large	intestine
19	chr3:99983200-100010000	Weak transcription	Pancreas	Pancrea
20	chr3:99983400-99999400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr3:99984200-99993000	Weak transcription	GM12878-XiMat	blood
22	chr3:99984200-99998200	Weak transcription	Primary T cells from cord blood	blood
23	chr3:99984200-99998800	Weak transcription	Fetal Intestine Small	intestine
24	chr3:99984200-99999000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr3:99984200-99999400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:99984200-100010000	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:99984200-100011000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:99985800-99997800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr3:99985800-99998000	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr3:99986600-100024800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr3:99987000-99991600	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr3:99987000-99994000	Weak transcription	Left Ventricle	heart
33	chr3:99987400-99991000	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr3:99987800-99992800	Enhancers	K562	blood
35	chr3:99988200-99993000	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr3:99988200-99999200	Weak transcription	Liver	Liver
37	chr3:99988600-99996000	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr3:99988800-99991600	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr3:99988800-99994000	Weak transcription	Ovary	ovary
40	chr3:99988800-100013800	Weak transcription	Fetal Brain Male	brain
41	chr3:99989000-99995800	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr3:99989000-99997200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:99989000-99998600	Weak transcription	Fetal Muscle Leg	muscle
44	chr3:99989000-99999400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr3:99989000-100002000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:99989000-100005800	Weak transcription	Thymus	Thymus
47	chr3:99989000-100007600	Weak transcription	HUVEC	blood vessel
48	chr3:99989000-100025000	Weak transcription	Fetal Brain Female	brain
49	chr3:99989200-99991200	Enhancers	NHDF-Ad	bronchial
50	chr3:99989200-99994000	Weak transcription	Primary T helper cells PMA-I stimulated	--

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