Variant report

Variant	rs1466933
Chromosome Location	chr1:160548880-160548881
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10797069	0.81[AMR][1000 genomes]
rs10797072	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10797076	0.80[AMR][1000 genomes]
rs10797077	0.89[CHB][hapmap];0.84[AMR][1000 genomes]
rs10797078	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10908787	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10908788	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10908790	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10908793	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11265432	0.80[AMR][1000 genomes]
rs11265433	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11265436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11265438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11265445	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11265446	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1149381	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12128290	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324734	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1408597	1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1503846	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1503856	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1503859	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1503860	0.90[CHB][hapmap];0.81[AMR][1000 genomes]
rs1503861	0.81[AMR][1000 genomes]
rs1553458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1590450	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1604784	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2050523	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2134705	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2369721	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2369723	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2438181	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs349250	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs349251	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3737788	0.84[AMR][1000 genomes]
rs3737789	0.85[AMR][1000 genomes]
rs3766390	0.85[AMR][1000 genomes]
rs3845627	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3898642	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3903887	0.83[EUR][1000 genomes]
rs3903888	0.83[EUR][1000 genomes]
rs3904694	0.83[EUR][1000 genomes]
rs4145896	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4268352	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6413899	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6427523	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6427525	0.80[AMR][1000 genomes]
rs6427528	0.90[CHB][hapmap];0.81[AMR][1000 genomes]
rs6427530	0.84[CHB][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6427536	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6427537	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6657941	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6659814	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6662885	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6668881	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680709	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6680920	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6689237	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6691593	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6696595	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6700764	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs724985	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7413789	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7519809	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7519913	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7522715	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7535796	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7543788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7549772	0.82[AMR][1000 genomes]
rs7555581	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7555826	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
3	nsv831703	chr1:160496124-160643024	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	esv1822379	chr1:160545332-160831143	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160544800-160549200	Active TSS	Rectal Mucosa Donor 29	rectum
2	chr1:160545800-160549000	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr1:160546000-160549800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
4	chr1:160546400-160549400	Active TSS	Primary T cells fromperipheralblood	blood
5	chr1:160546600-160549800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:160546800-160549800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:160547000-160549600	Active TSS	Adipose Nuclei	Adipose
8	chr1:160547200-160549000	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:160547200-160549200	Active TSS	Fetal Muscle Leg	muscle
10	chr1:160547200-160549400	Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr1:160547200-160549600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr1:160547400-160549000	Active TSS	Duodenum Mucosa	Duodenum
13	chr1:160547400-160549200	Active TSS	Brain Hippocampus Middle	brain
14	chr1:160547400-160549400	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr1:160547600-160549000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr1:160547600-160549400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
17	chr1:160547600-160549600	Active TSS	Thymus	Thymus
18	chr1:160547800-160549400	Active TSS	Primary T killer memory cells from peripheral blood	blood
19	chr1:160548000-160549200	Active TSS	Primary T helper naive cells from peripheral blood	blood
20	chr1:160548000-160549200	Active TSS	Liver	Liver
21	chr1:160548000-160549400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
22	chr1:160548000-160549400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr1:160548000-160549400	Active TSS	Duodenum Smooth Muscle	Duodenum
24	chr1:160548000-160549400	Flanking Active TSS	K562	blood
25	chr1:160548000-160549600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
26	chr1:160548000-160549800	Flanking Active TSS	Dnd41	blood
27	chr1:160548200-160549400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
28	chr1:160548400-160549000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr1:160548400-160549200	Active TSS	Primary B cells from peripheral blood	blood
30	chr1:160548400-160549200	Active TSS	Primary hematopoietic stem cells	blood
31	chr1:160548400-160549200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr1:160548400-160549400	Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr1:160548600-160549200	Active TSS	Monocytes-CD14+_RO01746	blood
34	chr1:160548600-160549600	Active TSS	Right Atrium	heart
35	chr1:160548800-160549000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
36	chr1:160548800-160549000	Flanking Active TSS	Primary B cells from cord blood	blood
37	chr1:160548800-160549200	Active TSS	Brain Substantia Nigra	brain
38	chr1:160548800-160549200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
39	chr1:160548800-160549400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
40	chr1:160548800-160549600	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
41	chr1:160548800-160549600	Flanking Active TSS	Fetal Thymus	thymus
42	chr1:160548800-160549600	Flanking Active TSS	GM12878-XiMat	blood
43	chr1:160548800-160550600	Enhancers	Small Intestine	intestine

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