Variant report

Variant	rs6927798
Chromosome Location	chr6:144651555-144651556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:144641867..144643569-chr6:144651499..144653037,2	MCF-7	breast:
2	chr6:144641871..144646816-chr6:144650336..144652619,4	MCF-7	breast:
3	chr6:144619076..144621180-chr6:144649818..144652128,2	MCF-7	breast:
4	chr6:144605652..144608306-chr6:144651410..144654181,2	MCF-7	breast:
5	chr6:144647226..144649891-chr6:144650190..144651852,2	MCF-7	breast:
6	chr6:144604459..144608309-chr6:144650515..144653848,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152818	Chromatin interaction

Extended variants
information (count: 148 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs11962764	0.91[JPT][hapmap]
rs12660406	1.00[EUR][1000 genomes]
rs12660513	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs12660531	1.00[EUR][1000 genomes]
rs12660596	1.00[EUR][1000 genomes]
rs12661781	1.00[EUR][1000 genomes]
rs12661969	1.00[EUR][1000 genomes]
rs12662267	1.00[EUR][1000 genomes]
rs12662696	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12662724	1.00[EUR][1000 genomes]
rs12662786	1.00[EUR][1000 genomes]
rs12662872	0.93[JPT][hapmap];1.00[EUR][1000 genomes]
rs12662904	1.00[EUR][1000 genomes]
rs12662914	0.93[JPT][hapmap]
rs12663172	1.00[EUR][1000 genomes]
rs12663380	1.00[EUR][1000 genomes]
rs12663605	1.00[EUR][1000 genomes]
rs12663851	1.00[EUR][1000 genomes]
rs12664200	1.00[EUR][1000 genomes]
rs12664245	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12664298	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs12664304	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12665589	1.00[EUR][1000 genomes]
rs12665850	1.00[EUR][1000 genomes]
rs1474630	0.87[JPT][hapmap]
rs17073442	1.00[EUR][1000 genomes]
rs17073463	1.00[EUR][1000 genomes]
rs17073482	1.00[EUR][1000 genomes]
rs17073498	1.00[EUR][1000 genomes]
rs17073506	1.00[EUR][1000 genomes]
rs17073524	1.00[EUR][1000 genomes]
rs17073528	1.00[EUR][1000 genomes]
rs17073529	1.00[EUR][1000 genomes]
rs17073544	1.00[EUR][1000 genomes]
rs17073571	0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17073578	0.87[JPT][hapmap]
rs17073580	0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17073596	0.87[JPT][hapmap]
rs17073598	0.87[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073602	0.87[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073610	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17073623	0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17073629	0.93[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073631	0.93[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073672	1.00[EUR][1000 genomes]
rs17073678	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17840301	1.00[EUR][1000 genomes]
rs1998367	1.00[EUR][1000 genomes]
rs34140249	1.00[EUR][1000 genomes]
rs34502493	1.00[EUR][1000 genomes]
rs35325795	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35681372	1.00[EUR][1000 genomes]
rs36007040	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3811097	1.00[EUR][1000 genomes]
rs4301321	1.00[EUR][1000 genomes]
rs4896714	1.00[EUR][1000 genomes]
rs4896715	1.00[EUR][1000 genomes]
rs4896717	1.00[EUR][1000 genomes]
rs55684976	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56820385	1.00[EUR][1000 genomes]
rs56897751	1.00[EUR][1000 genomes]
rs57069580	1.00[EUR][1000 genomes]
rs57380483	1.00[EUR][1000 genomes]
rs57485302	1.00[EUR][1000 genomes]
rs57592921	1.00[EUR][1000 genomes]
rs57679521	1.00[EUR][1000 genomes]
rs57704478	1.00[EUR][1000 genomes]
rs57712072	1.00[EUR][1000 genomes]
rs57751197	1.00[EUR][1000 genomes]
rs58084770	1.00[EUR][1000 genomes]
rs58396690	1.00[EUR][1000 genomes]
rs58590469	1.00[EUR][1000 genomes]
rs58847604	1.00[EUR][1000 genomes]
rs58849686	1.00[EUR][1000 genomes]
rs58857193	1.00[EUR][1000 genomes]
rs59003501	1.00[EUR][1000 genomes]
rs59612420	1.00[EUR][1000 genomes]
rs59614628	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59718967	1.00[EUR][1000 genomes]
rs59803839	1.00[EUR][1000 genomes]
rs59810504	1.00[EUR][1000 genomes]
rs59936141	1.00[EUR][1000 genomes]
rs60053855	1.00[EUR][1000 genomes]
rs60188478	1.00[EUR][1000 genomes]
rs60234245	1.00[EUR][1000 genomes]
rs60345197	1.00[EUR][1000 genomes]
rs60439721	1.00[EUR][1000 genomes]
rs60484357	1.00[EUR][1000 genomes]
rs60559108	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60634096	1.00[EUR][1000 genomes]
rs60762289	1.00[EUR][1000 genomes]
rs60811448	1.00[EUR][1000 genomes]
rs60857439	1.00[EUR][1000 genomes]
rs60859726	1.00[EUR][1000 genomes]
rs61087655	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61211447	1.00[EUR][1000 genomes]
rs61249035	1.00[EUR][1000 genomes]
rs61327932	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570619	0.81[ASN][1000 genomes]
rs6903169	0.87[JPT][hapmap]
rs6903993	0.80[AMR][1000 genomes]
rs6911171	0.96[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6914753	1.00[EUR][1000 genomes]
rs6915621	1.00[EUR][1000 genomes]
rs6916795	0.93[JPT][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes]
rs6917261	1.00[ASW][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6919115	0.93[JPT][hapmap];0.96[AMR][1000 genomes]
rs6922109	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6922608	1.00[ASW][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924797	0.93[JPT][hapmap];0.84[AMR][1000 genomes]
rs6941296	0.93[JPT][hapmap];0.96[AMR][1000 genomes]
rs73588920	0.96[AMR][1000 genomes]
rs73589002	1.00[EUR][1000 genomes]
rs73591113	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73594934	1.00[EUR][1000 genomes]
rs73594936	0.80[AMR][1000 genomes]
rs73594937	0.80[AMR][1000 genomes]
rs73780508	1.00[EUR][1000 genomes]
rs73780540	1.00[EUR][1000 genomes]
rs73780544	0.80[AMR][1000 genomes]
rs7741466	0.93[JPT][hapmap];1.00[EUR][1000 genomes]
rs7743190	0.80[AMR][1000 genomes]
rs7745240	1.00[EUR][1000 genomes]
rs7745998	0.93[JPT][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7747486	1.00[EUR][1000 genomes]
rs7748278	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs7751351	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7751876	1.00[EUR][1000 genomes]
rs7754883	1.00[EUR][1000 genomes]
rs7761280	0.80[AMR][1000 genomes]
rs7766883	1.00[EUR][1000 genomes]
rs7768531	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774175	1.00[EUR][1000 genomes]
rs9321968	0.93[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes]
rs9321969	0.93[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes]
rs9484874	1.00[EUR][1000 genomes]
rs9496925	0.93[JPT][hapmap];0.96[AMR][1000 genomes]
rs9496928	0.96[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9496930	0.93[JPT][hapmap];0.84[AMR][1000 genomes]
rs9496932	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9496935	1.00[ASW][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9496938	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9496944	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs9496955	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	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144636000-144656200	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:144636600-144654800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:144636800-144654800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:144636800-144656400	Weak transcription	Brain Substantia Nigra	brain
5	chr6:144637000-144651800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:144639600-144660200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:144642200-144654800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:144642200-144655200	Weak transcription	Thymus	Thymus
9	chr6:144642200-144659800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:144643200-144651600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:144643600-144652600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:144643600-144656400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:144643800-144652000	Weak transcription	HSMM	muscle
14	chr6:144643800-144663000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:144644400-144652600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:144644400-144652600	Weak transcription	NHDF-Ad	bronchial
17	chr6:144646400-144655200	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr6:144646800-144652000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:144646800-144654600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:144647800-144651800	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:144647800-144651800	Enhancers	H9 Cell Line	embryonic stem cell
22	chr6:144648200-144652800	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr6:144648200-144661200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:144648600-144652200	Weak transcription	NHLF	lung
25	chr6:144648800-144651800	Weak transcription	HSMMtube	muscle
26	chr6:144648800-144672800	Weak transcription	Fetal Stomach	stomach
27	chr6:144649400-144652400	Weak transcription	Osteobl	bone
28	chr6:144649400-144652600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr6:144649400-144652800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:144649400-144660000	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:144649600-144651600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:144650000-144653400	Enhancers	Ovary	ovary
33	chr6:144650200-144653200	Enhancers	Adipose Nuclei	Adipose
34	chr6:144650400-144651800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:144650400-144653200	Enhancers	Fetal Heart	heart
36	chr6:144650600-144651600	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr6:144650600-144651800	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr6:144650600-144651800	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr6:144650600-144652000	Enhancers	Fetal Lung	lung
40	chr6:144650600-144652400	Enhancers	Fetal Intestine Small	intestine
41	chr6:144650600-144652600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr6:144650600-144652600	Enhancers	Brain Anterior Caudate	brain
43	chr6:144650600-144653400	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr6:144650600-144653600	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr6:144650800-144651600	Enhancers	HMEC	breast
46	chr6:144650800-144651800	Enhancers	Fetal Brain Female	brain
47	chr6:144650800-144651800	Enhancers	Pancreas	Pancrea
48	chr6:144650800-144652000	Enhancers	Aorta	Aorta
49	chr6:144650800-144652400	Enhancers	Brain Germinal Matrix	brain
50	chr6:144650800-144652800	Enhancers	Skeletal Muscle Female	skeletal muscle

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