Variant report

Variant	rs12655928
Chromosome Location	chr5:126405431-126405432
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:126365531..126367434-chr5:126405105..126407993,2	MCF-7	breast:
2	chr5:126400371..126404214-chr5:126405017..126407221,3	K562	blood:
3	chr5:126403524..126406456-chr5:126407438..126409383,3	MCF-7	breast:
4	chr5:126403735..126406499-chr5:126409532..126411387,2	K562	blood:
5	chr5:126396237..126398599-chr5:126404822..126406600,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164241	Chromatin interaction
ENSG00000173926	Chromatin interaction

Extended variants
information (count: 207 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:203)

rs_ID	r²[population]
rs10040840	0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs10519919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519922	1.00[EUR][1000 genomes]
rs10519923	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12518420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12651864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12652019	0.91[EUR][1000 genomes]
rs12652390	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12652417	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12653000	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12653290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12653444	1.00[EUR][1000 genomes]
rs12654313	0.91[EUR][1000 genomes]
rs12654717	1.00[EUR][1000 genomes]
rs12654725	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12654808	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12655006	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12655199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12655223	1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12655258	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12655319	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12655435	1.00[EUR][1000 genomes]
rs12655605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12655699	0.82[JPT][hapmap]
rs12655726	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12655991	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12656236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12656537	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12656837	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12658138	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12658174	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12658599	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12658608	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12658816	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12658821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12658822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12659476	1.00[EUR][1000 genomes]
rs12659607	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12659614	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12659633	1.00[EUR][1000 genomes]
rs17165192	1.00[EUR][1000 genomes]
rs17165194	1.00[EUR][1000 genomes]
rs17165211	1.00[EUR][1000 genomes]
rs17165228	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165234	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs17165239	1.00[EUR][1000 genomes]
rs17165244	0.82[JPT][hapmap]
rs17165248	0.82[JPT][hapmap]
rs17165249	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165251	0.82[JPT][hapmap]
rs17762544	0.91[EUR][1000 genomes]
rs17839703	0.92[EUR][1000 genomes]
rs34416835	1.00[EUR][1000 genomes]
rs34738240	1.00[EUR][1000 genomes]
rs35566904	1.00[EUR][1000 genomes]
rs35627668	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36091921	1.00[EUR][1000 genomes]
rs3812061	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4141169	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs4141170	0.82[JPT][hapmap]
rs55792418	1.00[EUR][1000 genomes]
rs55802546	1.00[EUR][1000 genomes]
rs56094173	1.00[EUR][1000 genomes]
rs56122855	0.92[EUR][1000 genomes]
rs56124224	1.00[EUR][1000 genomes]
rs56171951	0.92[EUR][1000 genomes]
rs56272610	1.00[EUR][1000 genomes]
rs56688052	1.00[EUR][1000 genomes]
rs56689722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56786115	1.00[EUR][1000 genomes]
rs57031083	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57032367	1.00[EUR][1000 genomes]
rs57052202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57081850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57113926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57485054	0.82[EUR][1000 genomes]
rs57627287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57700815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57833976	1.00[EUR][1000 genomes]
rs57906418	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57915728	1.00[EUR][1000 genomes]
rs58011598	0.82[EUR][1000 genomes]
rs58164143	1.00[EUR][1000 genomes]
rs58249730	0.91[EUR][1000 genomes]
rs58262537	1.00[EUR][1000 genomes]
rs58527455	1.00[EUR][1000 genomes]
rs58646561	1.00[EUR][1000 genomes]
rs58727001	0.82[EUR][1000 genomes]
rs58838495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58894799	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59459356	1.00[EUR][1000 genomes]
rs59489123	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59643871	1.00[EUR][1000 genomes]
rs59676931	1.00[EUR][1000 genomes]
rs59814275	1.00[EUR][1000 genomes]
rs59871357	0.82[EUR][1000 genomes]
rs60045571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60138783	0.82[EUR][1000 genomes]
rs60138815	1.00[EUR][1000 genomes]
rs60244211	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60615137	1.00[EUR][1000 genomes]
rs60636815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60781824	1.00[EUR][1000 genomes]
rs60889784	1.00[EUR][1000 genomes]
rs61031864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61258380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61279308	1.00[EUR][1000 genomes]
rs61463824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61496590	0.82[EUR][1000 genomes]
rs61653213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61685918	1.00[EUR][1000 genomes]
rs6595747	0.82[JPT][hapmap]
rs6860581	0.82[JPT][hapmap]
rs6862462	1.00[EUR][1000 genomes]
rs6864607	0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs6872893	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs6877692	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs6882025	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs6883181	1.00[EUR][1000 genomes]
rs6886131	0.82[JPT][hapmap]
rs6888532	1.00[EUR][1000 genomes]
rs6893763	1.00[EUR][1000 genomes]
rs6899030	1.00[EUR][1000 genomes]
rs72505648	0.82[EUR][1000 genomes]
rs73335426	0.82[EUR][1000 genomes]
rs73335444	0.82[EUR][1000 genomes]
rs73335447	0.82[EUR][1000 genomes]
rs73335461	0.82[EUR][1000 genomes]
rs73335474	0.82[EUR][1000 genomes]
rs73335490	1.00[EUR][1000 genomes]
rs73335494	1.00[EUR][1000 genomes]
rs73335498	1.00[EUR][1000 genomes]
rs73335501	1.00[EUR][1000 genomes]
rs73337225	0.84[EUR][1000 genomes]
rs73337229	1.00[EUR][1000 genomes]
rs73337233	1.00[EUR][1000 genomes]
rs73337299	1.00[EUR][1000 genomes]
rs73783476	0.82[EUR][1000 genomes]
rs73783496	1.00[EUR][1000 genomes]
rs73783501	1.00[EUR][1000 genomes]
rs73783503	1.00[EUR][1000 genomes]
rs73783504	1.00[EUR][1000 genomes]
rs73783506	1.00[EUR][1000 genomes]
rs73783507	1.00[EUR][1000 genomes]
rs73785546	0.82[EUR][1000 genomes]
rs73785547	0.82[EUR][1000 genomes]
rs73785555	0.82[EUR][1000 genomes]
rs73785556	0.82[EUR][1000 genomes]
rs73785558	0.82[EUR][1000 genomes]
rs73786207	1.00[EUR][1000 genomes]
rs73786209	1.00[EUR][1000 genomes]
rs73786212	1.00[EUR][1000 genomes]
rs73786239	1.00[EUR][1000 genomes]
rs73786240	1.00[EUR][1000 genomes]
rs73786241	1.00[EUR][1000 genomes]
rs73786242	1.00[EUR][1000 genomes]
rs73786244	1.00[EUR][1000 genomes]
rs73786246	1.00[EUR][1000 genomes]
rs73786247	1.00[EUR][1000 genomes]
rs73786249	1.00[EUR][1000 genomes]
rs73786250	1.00[EUR][1000 genomes]
rs73786251	1.00[EUR][1000 genomes]
rs73786252	1.00[EUR][1000 genomes]
rs73786253	1.00[EUR][1000 genomes]
rs73786255	1.00[EUR][1000 genomes]
rs73786259	1.00[EUR][1000 genomes]
rs73786260	1.00[EUR][1000 genomes]
rs73786261	1.00[EUR][1000 genomes]
rs73786262	1.00[EUR][1000 genomes]
rs73786264	1.00[EUR][1000 genomes]
rs73786265	1.00[EUR][1000 genomes]
rs73786266	1.00[EUR][1000 genomes]
rs73786267	0.92[EUR][1000 genomes]
rs73786268	1.00[EUR][1000 genomes]
rs73786269	1.00[EUR][1000 genomes]
rs73786270	1.00[EUR][1000 genomes]
rs73786271	1.00[EUR][1000 genomes]
rs73786272	1.00[EUR][1000 genomes]
rs73786276	1.00[EUR][1000 genomes]
rs73786277	1.00[EUR][1000 genomes]
rs73786278	1.00[EUR][1000 genomes]
rs73786280	1.00[EUR][1000 genomes]
rs73786281	1.00[EUR][1000 genomes]
rs73786282	1.00[EUR][1000 genomes]
rs73786283	1.00[EUR][1000 genomes]
rs73786284	1.00[EUR][1000 genomes]
rs73786285	1.00[EUR][1000 genomes]
rs73786287	1.00[EUR][1000 genomes]
rs73786288	1.00[EUR][1000 genomes]
rs73786290	1.00[EUR][1000 genomes]
rs73786294	1.00[EUR][1000 genomes]
rs73786295	1.00[EUR][1000 genomes]
rs73786298	1.00[EUR][1000 genomes]
rs73787403	1.00[EUR][1000 genomes]
rs73787404	1.00[EUR][1000 genomes]
rs73787406	1.00[EUR][1000 genomes]
rs7701976	0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs7709865	0.82[JPT][hapmap]
rs7715377	0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs7723558	0.82[EUR][1000 genomes]
rs7727719	0.82[EUR][1000 genomes]
rs7728190	0.82[EUR][1000 genomes]
rs9918233	1.00[EUR][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	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
4	esv1816248	chr5:126399039-126486539	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126374600-126408400	Weak transcription	Psoas Muscle	Psoas
2	chr5:126377200-126409000	Weak transcription	Spleen	Spleen
3	chr5:126377400-126408400	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr5:126378000-126408000	Weak transcription	Fetal Intestine Small	intestine
5	chr5:126378000-126408400	Weak transcription	Right Ventricle	heart
6	chr5:126378200-126408200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr5:126378400-126408000	Weak transcription	HMEC	breast
8	chr5:126380400-126408000	Weak transcription	HepG2	liver
9	chr5:126381400-126408400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr5:126382400-126408600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr5:126386000-126406400	Weak transcription	Adipose Nuclei	Adipose
12	chr5:126388000-126408000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:126388600-126408400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr5:126388800-126406400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr5:126389000-126408400	Weak transcription	Thymus	Thymus
16	chr5:126390200-126408400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:126391400-126408200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr5:126391600-126408200	Weak transcription	A549	lung
19	chr5:126392000-126408200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr5:126392000-126408200	Weak transcription	Fetal Kidney	kidney
21	chr5:126392000-126408200	Weak transcription	NHEK	skin
22	chr5:126392000-126408400	Weak transcription	Fetal Brain Female	brain
23	chr5:126392000-126408400	Weak transcription	HSMMtube	muscle
24	chr5:126392200-126408400	Weak transcription	Fetal Stomach	stomach
25	chr5:126392200-126408600	Weak transcription	Lung	lung
26	chr5:126392400-126408000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr5:126392400-126408400	Weak transcription	Primary hematopoietic stem cells	blood
28	chr5:126392400-126408400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr5:126392400-126408400	Weak transcription	Pancreas	Pancrea
30	chr5:126392400-126408400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr5:126392400-126408600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr5:126392400-126408600	Weak transcription	Ovary	ovary
33	chr5:126392400-126408600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr5:126392600-126408000	Weak transcription	Liver	Liver
35	chr5:126392600-126408400	Weak transcription	Fetal Thymus	thymus
36	chr5:126393600-126406800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr5:126393600-126412000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr5:126393800-126408400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr5:126394000-126407600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr5:126394000-126408000	Weak transcription	Fetal Muscle Leg	muscle
41	chr5:126394000-126408200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr5:126394400-126406000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr5:126394600-126408400	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr5:126396600-126408000	Weak transcription	GM12878-XiMat	blood
45	chr5:126399400-126408600	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr5:126400000-126407800	Weak transcription	Duodenum Mucosa	Duodenum
47	chr5:126400600-126408000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr5:126400600-126408400	Weak transcription	Brain Cingulate Gyrus	brain
49	chr5:126401600-126408400	Weak transcription	Fetal Intestine Large	intestine
50	chr5:126402600-126406400	Weak transcription	Primary T helper cells fromperipheralblood	blood

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