Variant report

Variant	rs17165251
Chromosome Location	chr5:126394484-126394485
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MARCH3-3	chr5:126394445-126394694	NONHSAT103609

Extended variants
information (count: 161 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:158)

rs_ID	r²[population]
rs10040840	1.00[CHB][hapmap];0.96[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap]
rs10075097	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519920	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12652390	0.87[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap]
rs12652417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12653000	0.85[JPT][hapmap]
rs12653444	0.86[ASN][1000 genomes]
rs12653823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12654717	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs12654725	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12654808	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs12655006	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12655223	0.82[CHD][hapmap];0.85[GIH][hapmap]
rs12655258	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12655319	0.85[JPT][hapmap]
rs12655435	0.86[ASN][1000 genomes]
rs12655699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12655726	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12655928	0.82[JPT][hapmap]
rs12655991	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs12656223	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12656537	0.82[JPT][hapmap]
rs12656837	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12658138	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12658174	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs12658599	0.85[JPT][hapmap]
rs12658822	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs12659476	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12659614	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs12659633	0.96[ASN][1000 genomes]
rs17165213	0.88[GIH][hapmap]
rs17165228	0.87[CHD][hapmap];0.85[JPT][hapmap]
rs17165234	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17165236	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165239	1.00[ASN][1000 genomes]
rs17165244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165248	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165249	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs34416835	0.82[ASN][1000 genomes]
rs34738240	0.82[ASN][1000 genomes]
rs35566904	0.82[ASN][1000 genomes]
rs36091921	0.82[ASN][1000 genomes]
rs3812061	0.87[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap]
rs4141169	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4141170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55792418	0.82[ASN][1000 genomes]
rs55802546	0.86[ASN][1000 genomes]
rs56073877	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56094173	0.82[ASN][1000 genomes]
rs56124224	0.96[ASN][1000 genomes]
rs56272610	0.86[ASN][1000 genomes]
rs56279346	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56688052	0.82[ASN][1000 genomes]
rs56786115	0.82[ASN][1000 genomes]
rs57032367	0.82[ASN][1000 genomes]
rs57285842	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57833976	0.82[ASN][1000 genomes]
rs57915728	0.86[ASN][1000 genomes]
rs58030771	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58164143	0.96[ASN][1000 genomes]
rs58249730	0.82[ASN][1000 genomes]
rs58262537	0.82[ASN][1000 genomes]
rs58527455	0.86[ASN][1000 genomes]
rs58646561	0.82[ASN][1000 genomes]
rs58754116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59459356	0.82[ASN][1000 genomes]
rs59643871	0.82[ASN][1000 genomes]
rs59676931	0.82[ASN][1000 genomes]
rs59770843	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59814275	0.82[ASN][1000 genomes]
rs60138815	0.82[ASN][1000 genomes]
rs60615137	0.82[ASN][1000 genomes]
rs60781824	0.82[ASN][1000 genomes]
rs60889784	0.82[ASN][1000 genomes]
rs60892581	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61279308	0.86[ASN][1000 genomes]
rs61544197	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61679093	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61685918	0.82[ASN][1000 genomes]
rs61697996	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6595747	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6860157	1.00[CEU][hapmap]
rs6860581	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6864607	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap]
rs6870711	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6872893	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6877692	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6882025	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6886131	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6892168	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73335498	0.82[ASN][1000 genomes]
rs73335501	0.82[ASN][1000 genomes]
rs73337225	0.82[ASN][1000 genomes]
rs73337229	0.82[ASN][1000 genomes]
rs73337233	0.82[ASN][1000 genomes]
rs73337299	0.86[ASN][1000 genomes]
rs73339248	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73339251	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73339283	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73339293	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73783496	0.82[ASN][1000 genomes]
rs73783501	0.82[ASN][1000 genomes]
rs73783503	0.86[ASN][1000 genomes]
rs73783504	0.86[ASN][1000 genomes]
rs73783506	0.86[ASN][1000 genomes]
rs73783507	0.86[ASN][1000 genomes]
rs73783529	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73786207	0.82[ASN][1000 genomes]
rs73786209	0.82[ASN][1000 genomes]
rs73786212	0.82[ASN][1000 genomes]
rs73786239	0.82[ASN][1000 genomes]
rs73786240	0.82[ASN][1000 genomes]
rs73786241	0.82[ASN][1000 genomes]
rs73786242	0.82[ASN][1000 genomes]
rs73786244	0.82[ASN][1000 genomes]
rs73786246	0.82[ASN][1000 genomes]
rs73786247	0.82[ASN][1000 genomes]
rs73786249	0.82[ASN][1000 genomes]
rs73786250	0.82[ASN][1000 genomes]
rs73786251	0.82[ASN][1000 genomes]
rs73786252	0.82[ASN][1000 genomes]
rs73786253	0.82[ASN][1000 genomes]
rs73786255	0.82[ASN][1000 genomes]
rs73786259	0.82[ASN][1000 genomes]
rs73786260	0.82[ASN][1000 genomes]
rs73786261	0.82[ASN][1000 genomes]
rs73786262	0.82[ASN][1000 genomes]
rs73786264	0.82[ASN][1000 genomes]
rs73786265	0.82[ASN][1000 genomes]
rs73786266	0.82[ASN][1000 genomes]
rs73786267	0.82[ASN][1000 genomes]
rs73786268	0.82[ASN][1000 genomes]
rs73786269	0.82[ASN][1000 genomes]
rs73786270	0.82[ASN][1000 genomes]
rs73786271	0.82[ASN][1000 genomes]
rs73786272	0.80[ASN][1000 genomes]
rs73786276	0.86[ASN][1000 genomes]
rs73786277	0.86[ASN][1000 genomes]
rs73786278	0.86[ASN][1000 genomes]
rs73786280	0.86[ASN][1000 genomes]
rs73786281	0.86[ASN][1000 genomes]
rs73786282	0.86[ASN][1000 genomes]
rs73786283	0.86[ASN][1000 genomes]
rs73786284	0.86[ASN][1000 genomes]
rs73786285	0.86[ASN][1000 genomes]
rs73786287	0.86[ASN][1000 genomes]
rs73786288	0.86[ASN][1000 genomes]
rs73786290	0.86[ASN][1000 genomes]
rs73786294	0.86[ASN][1000 genomes]
rs73786295	0.86[ASN][1000 genomes]
rs73786298	0.86[ASN][1000 genomes]
rs73787403	0.86[ASN][1000 genomes]
rs73787404	0.86[ASN][1000 genomes]
rs73787406	0.86[ASN][1000 genomes]
rs7701976	1.00[CHB][hapmap];0.96[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap]
rs7709865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7715377	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9918233	1.00[CHB][hapmap];0.86[JPT][hapmap];0.96[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	nsv1024265	chr5:126213004-126691163	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv869897	chr5:126224358-126445210	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126374600-126408400	Weak transcription	Psoas Muscle	Psoas
2	chr5:126377200-126395200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr5:126377200-126400000	Weak transcription	Gastric	stomach
4	chr5:126377200-126401400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:126377200-126409000	Weak transcription	Spleen	Spleen
6	chr5:126377400-126395800	Weak transcription	Colonic Mucosa	Colon
7	chr5:126377400-126403800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr5:126377400-126404600	Weak transcription	Left Ventricle	heart
9	chr5:126377400-126408400	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr5:126378000-126408000	Weak transcription	Fetal Intestine Small	intestine
11	chr5:126378000-126408400	Weak transcription	Right Ventricle	heart
12	chr5:126378200-126408200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:126378400-126408000	Weak transcription	HMEC	breast
14	chr5:126379200-126404800	Weak transcription	Brain Germinal Matrix	brain
15	chr5:126379400-126404600	Weak transcription	Fetal Heart	heart
16	chr5:126380400-126408000	Weak transcription	HepG2	liver
17	chr5:126381000-126397800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr5:126381400-126408400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr5:126381600-126396600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr5:126382400-126408600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr5:126386000-126406400	Weak transcription	Adipose Nuclei	Adipose
22	chr5:126386400-126395400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr5:126388000-126408000	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr5:126388200-126404400	Weak transcription	HSMM	muscle
25	chr5:126388600-126408400	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr5:126388800-126406400	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr5:126389000-126396000	Weak transcription	Osteobl	bone
28	chr5:126389000-126400200	Weak transcription	Brain Substantia Nigra	brain
29	chr5:126389000-126408400	Weak transcription	Thymus	Thymus
30	chr5:126390200-126408400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr5:126391200-126394800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr5:126391400-126408200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr5:126391600-126394600	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr5:126391600-126394800	Strong transcription	Duodenum Mucosa	Duodenum
35	chr5:126391600-126408200	Weak transcription	A549	lung
36	chr5:126391800-126394800	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr5:126392000-126404400	Weak transcription	NH-A	brain
38	chr5:126392000-126408200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr5:126392000-126408200	Weak transcription	Fetal Kidney	kidney
40	chr5:126392000-126408200	Weak transcription	NHEK	skin
41	chr5:126392000-126408400	Weak transcription	Fetal Brain Female	brain
42	chr5:126392000-126408400	Weak transcription	HSMMtube	muscle
43	chr5:126392200-126408400	Weak transcription	Fetal Stomach	stomach
44	chr5:126392200-126408600	Weak transcription	Lung	lung
45	chr5:126392400-126398800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr5:126392400-126408000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr5:126392400-126408400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr5:126392400-126408400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr5:126392400-126408400	Weak transcription	Pancreas	Pancrea
50	chr5:126392400-126408400	Weak transcription	Stomach Smooth Muscle	stomach

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