Variant report

Variant	rs2929515
Chromosome Location	chr15:72219988-72219989
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs11072341	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11072343	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11072344	0.81[ASN][1000 genomes]
rs1120002	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11856068	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12437582	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438532	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12439689	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12439773	0.86[EUR][1000 genomes]
rs12440299	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12441246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12441470	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12441567	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12441622	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12442680	0.80[ASN][1000 genomes]
rs12443127	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12592615	0.82[ASN][1000 genomes]
rs12592806	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12592969	0.82[ASN][1000 genomes]
rs12593857	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12593946	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1471688	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1545825	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1598714	0.81[AFR][1000 genomes]
rs16953747	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16956539	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16956602	0.80[ASN][1000 genomes]
rs1805020	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1805021	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1871834	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1905337	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1979459	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2277544	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2291279	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2305705	0.80[ASN][1000 genomes]
rs2306575	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2415124	0.92[AFR][1000 genomes]
rs2415125	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2415129	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2415131	1.00[ASW][hapmap];0.91[MKK][hapmap]
rs2625526	0.81[ASN][1000 genomes]
rs2723357	0.91[AFR][1000 genomes]
rs2742321	0.88[AFR][1000 genomes]
rs28397923	0.80[ASN][1000 genomes]
rs28639924	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28653163	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28658271	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28701834	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2899774	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2929514	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2929521	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2929522	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2929524	0.88[ASN][1000 genomes]
rs2929530	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2929531	1.00[ASW][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2929533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2957367	0.81[AFR][1000 genomes]
rs2957369	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2957726	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2957729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957730	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957733	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2957741	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2957747	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2957748	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2957749	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34625473	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[ASN][1000 genomes]
rs35696756	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35773391	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3759812	0.81[EUR][1000 genomes]
rs3809505	0.82[ASN][1000 genomes]
rs3825869	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4511484	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4776583	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4777472	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4777479	0.83[ASN][1000 genomes]
rs4777487	1.00[YRI][hapmap]
rs6494976	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6494987	0.80[AFR][1000 genomes]
rs7162134	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7164646	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7170173	1.00[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap]
rs7171446	0.82[ASN][1000 genomes]
rs7172281	0.85[AMR][1000 genomes]
rs7173532	1.00[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap]
rs7175907	0.82[ASN][1000 genomes]
rs7178613	0.81[ASN][1000 genomes]
rs8031658	0.81[AFR][1000 genomes]
rs8032957	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8033997	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034436	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034722	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8039245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8182066	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs981695	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920148	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS 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 target site	11 gene(s)	inside rSNPs	diseases
2	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv516871	chr15:72126034-72325595	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
7	nsv904336	chr15:72145937-72329906	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv457195	chr15:72177659-72250741	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
9	nsv569909	chr15:72177659-72250741	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
10	nsv457197	chr15:72203517-72296328	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv569910	chr15:72203517-72296328	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv569911	chr15:72203517-72305982	Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv457198	chr15:72203517-72325595	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv569912	chr15:72203517-72325595	Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72144600-72223400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:72191000-72222800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr15:72191200-72229600	Weak transcription	HUVEC	blood vessel
4	chr15:72192400-72222800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr15:72192400-72223400	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr15:72192400-72223400	Weak transcription	NH-A	brain
7	chr15:72192400-72223600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:72192400-72224000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr15:72192400-72241200	Weak transcription	Brain Angular Gyrus	brain
10	chr15:72192400-72249400	Weak transcription	NHLF	lung
11	chr15:72193800-72224600	Weak transcription	Thymus	Thymus
12	chr15:72193800-72232000	Weak transcription	Fetal Heart	heart
13	chr15:72194200-72223400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr15:72194200-72223400	Weak transcription	HSMMtube	muscle
15	chr15:72194200-72224400	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr15:72194600-72223000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr15:72195400-72222800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr15:72196200-72222200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr15:72196600-72223000	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr15:72196800-72221400	Weak transcription	Brain Germinal Matrix	brain
21	chr15:72197400-72222200	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr15:72197400-72223600	Weak transcription	Osteobl	bone
23	chr15:72202000-72221400	Weak transcription	Fetal Brain Male	brain
24	chr15:72204200-72221800	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:72206400-72222800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:72206600-72221600	Weak transcription	Liver	Liver
27	chr15:72206600-72221800	Weak transcription	Fetal Kidney	kidney
28	chr15:72206600-72222000	Weak transcription	Primary B cells from cord blood	blood
29	chr15:72206600-72222000	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr15:72206600-72222200	Weak transcription	A549	lung
31	chr15:72206600-72223000	Weak transcription	Brain Hippocampus Middle	brain
32	chr15:72206600-72223000	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr15:72206800-72222800	Weak transcription	Fetal Brain Female	brain
34	chr15:72206800-72224600	Weak transcription	Brain Anterior Caudate	brain
35	chr15:72207000-72221800	Weak transcription	HSMM	muscle
36	chr15:72207000-72224200	Weak transcription	Ovary	ovary
37	chr15:72207400-72221600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:72207400-72221800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr15:72207400-72224000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr15:72209200-72222000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr15:72209400-72221400	Weak transcription	Primary T cells from cord blood	blood
42	chr15:72209400-72222400	Weak transcription	Primary hematopoietic stem cells	blood
43	chr15:72209400-72222600	Weak transcription	NHDF-Ad	bronchial
44	chr15:72209600-72222600	Weak transcription	Stomach Smooth Muscle	stomach
45	chr15:72210400-72223200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr15:72211400-72223400	Weak transcription	Fetal Intestine Small	intestine
47	chr15:72213800-72222000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:72213800-72223600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr15:72214000-72226800	Weak transcription	NHEK	skin
50	chr15:72214200-72223400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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