Variant report

Variant	rs6689237
Chromosome Location	chr1:160492270-160492271
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10797069	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10797072	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10797076	0.88[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10797077	0.88[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10797078	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10908787	0.91[TSI][hapmap]
rs10908788	0.91[TSI][hapmap]
rs11265432	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11265433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11265436	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11265438	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11265446	0.85[EUR][1000 genomes]
rs1149381	0.89[EUR][1000 genomes]
rs12128290	0.81[AMR][1000 genomes]
rs1324734	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1408597	1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs1466932	0.82[TSI][hapmap]
rs1466933	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1503856	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1503859	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1503860	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1553458	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1590450	0.89[EUR][1000 genomes]
rs1875766	0.82[TSI][hapmap]
rs2050523	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2134705	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2369723	0.89[EUR][1000 genomes]
rs2438181	0.87[EUR][1000 genomes]
rs349250	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs349251	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs3737788	0.81[ASN][1000 genomes]
rs3737789	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3766390	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3845627	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3898642	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3903887	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3903888	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3904694	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4145896	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4268352	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6413899	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427521	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6427523	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427525	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427528	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs6427530	0.82[CHB][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6659814	0.89[EUR][1000 genomes]
rs6662885	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6668881	0.89[EUR][1000 genomes]
rs6680709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680920	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6691593	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6696595	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6700440	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6700764	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs724985	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7413789	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7519809	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519913	0.87[EUR][1000 genomes]
rs7535796	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7543788	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs7547372	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7555581	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs977020	0.82[TSI][hapmap]

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	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv872491	chr1:160470258-160580549	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160488600-160493000	Enhancers	Primary hematopoietic stem cells	blood
2	chr1:160489000-160492400	Flanking Active TSS	Primary T cells from cord blood	blood
3	chr1:160489000-160492600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
4	chr1:160489200-160492800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr1:160489200-160493400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
6	chr1:160489400-160493200	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr1:160489800-160492600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
8	chr1:160489800-160492600	Enhancers	K562	blood
9	chr1:160490000-160492400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr1:160490000-160492400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr1:160490000-160493000	Active TSS	Rectal Mucosa Donor 29	rectum
12	chr1:160490000-160493200	Flanking Active TSS	Fetal Thymus	thymus
13	chr1:160490200-160492600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr1:160490200-160492600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr1:160490200-160493000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr1:160490200-160493000	Active TSS	Duodenum Mucosa	Duodenum
17	chr1:160490400-160493200	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
18	chr1:160490600-160493000	Flanking Active TSS	Thymus	Thymus
19	chr1:160490600-160493200	Active TSS	GM12878-XiMat	blood
20	chr1:160491000-160492400	Weak transcription	Dnd41	blood
21	chr1:160491000-160493000	Active TSS	Sigmoid Colon	Sigmoid Colon
22	chr1:160491200-160493200	Active TSS	Primary T cells fromperipheralblood	blood
23	chr1:160491600-160493200	Active TSS	Primary B cells from peripheral blood	blood
24	chr1:160491600-160493200	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
25	chr1:160491800-160493000	Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr1:160491800-160493000	Active TSS	Primary T killer memory cells from peripheral blood	blood
27	chr1:160491800-160493000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
28	chr1:160491800-160493000	Active TSS	Rectal Smooth Muscle	rectum
29	chr1:160492000-160492400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr1:160492000-160493000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
31	chr1:160492200-160492400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
32	chr1:160492200-160492400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
33	chr1:160492200-160493000	Active TSS	Adipose Nuclei	Adipose
34	chr1:160492200-160493000	Active TSS	Esophagus	oesophagus
35	chr1:160492200-160493000	Active TSS	Small Intestine	intestine

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