Variant report

Variant	rs6823404
Chromosome Location	chr4:95197520-95197521
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:95185779..95187283-chr4:95195279..95198245,2	K562	blood:
2	chr4:95189680..95192048-chr4:95196636..95198431,2	K562	blood:

Variant related genes	Relation type
ENSG00000163104	Chromatin interaction

Extended variants
information (count: 166 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:164)

rs_ID	r²[population]
rs10000247	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10008044	0.90[ASN][1000 genomes]
rs10016806	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10023115	0.90[ASN][1000 genomes]
rs10024642	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10028613	0.89[EUR][1000 genomes]
rs10030586	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10034781	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10433970	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10516947	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10516950	0.86[ASN][1000 genomes]
rs10856908	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10856909	0.82[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap]
rs11097406	0.96[ASN][1000 genomes]
rs11097407	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11097408	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097411	0.97[ASN][1000 genomes]
rs11097413	0.82[ASN][1000 genomes]
rs11097417	0.82[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap]
rs11722476	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11727030	0.89[JPT][hapmap]
rs11943926	0.93[ASN][1000 genomes]
rs12499309	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12501138	0.88[ASN][1000 genomes]
rs12505596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.91[ASN][1000 genomes]
rs12510326	0.84[ASN][1000 genomes]
rs12511433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12513267	0.91[ASN][1000 genomes]
rs12643901	0.96[ASN][1000 genomes]
rs12645192	0.98[ASN][1000 genomes]
rs12646184	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13108619	0.86[ASN][1000 genomes]
rs13111083	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13112528	0.98[ASN][1000 genomes]
rs13132963	0.96[ASN][1000 genomes]
rs13135934	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13138688	0.82[ASN][1000 genomes]
rs13142645	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13434570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13435702	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1565062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17021463	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17302300	0.90[ASN][1000 genomes]
rs17310266	1.00[ASN][1000 genomes]
rs17310526	0.96[ASN][1000 genomes]
rs17374832	0.91[ASN][1000 genomes]
rs17376404	0.97[ASN][1000 genomes]
rs17376488	0.97[ASN][1000 genomes]
rs17623135	0.96[ASN][1000 genomes]
rs183993	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1876917	0.90[ASN][1000 genomes]
rs1876918	0.90[ASN][1000 genomes]
rs1991316	0.89[JPT][hapmap]
rs2016476	0.86[ASN][1000 genomes]
rs2016483	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2059605	0.86[ASN][1000 genomes]
rs2087170	1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2129595	0.96[ASN][1000 genomes]
rs2171381	0.97[ASN][1000 genomes]
rs2171384	0.91[ASN][1000 genomes]
rs2276910	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2289186	0.84[ASN][1000 genomes]
rs2632399	0.98[ASN][1000 genomes]
rs2632401	1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2632405	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2632410	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2632411	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2632412	1.00[CEU][hapmap];0.95[GIH][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes]
rs2632417	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2664871	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2664872	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2664880	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2664881	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2664892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2664894	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs282447	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs282448	0.93[ASN][1000 genomes]
rs282449	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs282450	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28403447	0.85[ASN][1000 genomes]
rs28408270	0.93[ASN][1000 genomes]
rs28469860	0.86[ASN][1000 genomes]
rs2865343	0.91[ASN][1000 genomes]
rs2865344	0.91[ASN][1000 genomes]
rs2865345	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2865350	0.92[EUR][1000 genomes]
rs2865352	0.83[ASN][1000 genomes]
rs28696050	0.95[ASN][1000 genomes]
rs28701470	0.80[EUR][1000 genomes]
rs28815470	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2883	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2902979	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3106133	0.90[ASN][1000 genomes]
rs3106134	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3106135	0.96[ASN][1000 genomes]
rs3106136	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3113862	0.96[ASN][1000 genomes]
rs3113863	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34145031	1.00[ASN][1000 genomes]
rs34383543	0.94[ASN][1000 genomes]
rs34396894	0.90[ASN][1000 genomes]
rs34465979	0.86[ASN][1000 genomes]
rs34711938	0.96[ASN][1000 genomes]
rs35361491	1.00[ASN][1000 genomes]
rs35670996	1.00[ASN][1000 genomes]
rs35995707	1.00[ASN][1000 genomes]
rs4235050	0.95[CEU][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4438731	0.90[ASN][1000 genomes]
rs4558832	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4560373	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4692999	0.89[ASN][1000 genomes]
rs4693000	0.88[ASN][1000 genomes]
rs4693003	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4693004	0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4693375	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.93[ASN][1000 genomes]
rs4693376	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4693377	0.97[ASN][1000 genomes]
rs4693378	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4693381	0.94[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56197713	0.86[ASN][1000 genomes]
rs60428594	0.91[ASN][1000 genomes]
rs61004493	1.00[ASN][1000 genomes]
rs61069704	0.90[ASN][1000 genomes]
rs61514245	1.00[ASN][1000 genomes]
rs62320439	0.82[ASN][1000 genomes]
rs6532469	0.90[ASN][1000 genomes]
rs6532472	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.91[ASN][1000 genomes]
rs6532476	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66581998	0.97[ASN][1000 genomes]
rs67552174	0.97[ASN][1000 genomes]
rs6817795	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6821438	0.90[ASN][1000 genomes]
rs6821638	0.89[ASN][1000 genomes]
rs6840674	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6841121	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6855358	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6857967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6858265	0.90[ASN][1000 genomes]
rs6858342	0.91[ASN][1000 genomes]
rs722486	0.90[ASN][1000 genomes]
rs72665608	0.87[ASN][1000 genomes]
rs72665629	0.91[ASN][1000 genomes]
rs72665658	0.96[ASN][1000 genomes]
rs7435106	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7437089	0.83[ASN][1000 genomes]
rs7438414	0.89[JPT][hapmap]
rs7439869	0.95[CEU][hapmap];0.86[CHB][hapmap];0.92[CHD][hapmap];0.98[GIH][hapmap];0.84[JPT][hapmap];0.85[MEX][hapmap];0.91[TSI][hapmap];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7442254	0.96[ASN][1000 genomes]
rs7654565	0.91[ASN][1000 genomes]
rs7654919	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7657789	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7669168	0.91[ASN][1000 genomes]
rs767657	0.86[ASN][1000 genomes]
rs7678054	0.90[ASN][1000 genomes]
rs7680953	0.83[ASN][1000 genomes]
rs7685121	0.94[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7697827	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8026	1.00[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs8336	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs901615	0.86[ASN][1000 genomes]
rs9307136	0.93[ASN][1000 genomes]
rs9307137	0.91[ASN][1000 genomes]
rs9884209	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9884431	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993495	chr4:94992315-95482578	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv292335	chr4:95197059-95203357	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95130200-95198200	Weak transcription	Colonic Mucosa	Colon
2	chr4:95131600-95198200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr4:95138800-95214400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:95146000-95214200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:95146200-95214200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:95146200-95214400	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr4:95151400-95214400	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr4:95152200-95202000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:95158200-95225800	Weak transcription	Stomach Mucosa	stomach
10	chr4:95161400-95207000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr4:95163000-95200200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr4:95163000-95210200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr4:95164400-95202800	Weak transcription	Pancreas	Pancrea
14	chr4:95164600-95200200	Weak transcription	Lung	lung
15	chr4:95164600-95200200	Weak transcription	Spleen	Spleen
16	chr4:95165000-95198000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr4:95165400-95200000	Weak transcription	Fetal Brain Male	brain
18	chr4:95165400-95202800	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr4:95167600-95200200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr4:95167800-95199800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr4:95167800-95200200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr4:95167800-95200200	Weak transcription	Fetal Stomach	stomach
23	chr4:95167800-95212800	Weak transcription	Esophagus	oesophagus
24	chr4:95168000-95214200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr4:95168600-95198200	Weak transcription	Psoas Muscle	Psoas
26	chr4:95172600-95198400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr4:95172600-95202000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr4:95174400-95200000	Weak transcription	Fetal Kidney	kidney
29	chr4:95174400-95200200	Weak transcription	Colon Smooth Muscle	Colon
30	chr4:95174600-95198000	Weak transcription	Brain Anterior Caudate	brain
31	chr4:95174600-95199200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr4:95174600-95199800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr4:95174800-95200000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr4:95174800-95200000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr4:95175000-95198800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr4:95175000-95198800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr4:95175000-95198800	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr4:95175000-95198800	Weak transcription	HSMMtube	muscle
39	chr4:95175600-95198000	Weak transcription	Brain Angular Gyrus	brain
40	chr4:95175800-95200200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr4:95177000-95214000	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr4:95180400-95198000	Weak transcription	Fetal Heart	heart
43	chr4:95184400-95200000	Weak transcription	Brain Substantia Nigra	brain
44	chr4:95184800-95198200	Weak transcription	NHEK	skin
45	chr4:95185200-95226800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr4:95185400-95213000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr4:95185800-95214400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr4:95186000-95206000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr4:95187800-95197600	Weak transcription	Hela-S3	cervix
50	chr4:95187800-95208800	Strong transcription	Liver	Liver

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