Variant report

Variant	rs41273297
Chromosome Location	chr6:88362674-88362675
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88360758..88363835-chr6:88400530..88404540,3	K562	blood:
2	chr6:88358010..88360015-chr6:88361072..88363253,2	K562	blood:
3	chr6:88361852..88364421-chr6:88375855..88377969,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs16879559	0.82[AMR][1000 genomes]
rs16879704	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16879736	0.89[EUR][1000 genomes]
rs28381470	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28381475	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28381530	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3763177	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4398698	0.86[AMR][1000 genomes]
rs55755139	0.86[AMR][1000 genomes]
rs55909105	0.83[ASN][1000 genomes]
rs55985738	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56092913	0.88[AMR][1000 genomes]
rs56400749	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57573658	0.91[ASN][1000 genomes]
rs58060521	0.97[EUR][1000 genomes]
rs59131518	0.89[EUR][1000 genomes]
rs59774543	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60082015	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60316099	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66464758	0.88[AMR][1000 genomes]
rs66502414	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66588280	0.86[EUR][1000 genomes]
rs66663658	0.84[AMR][1000 genomes]
rs66833561	0.86[AMR][1000 genomes]
rs66965134	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67371470	0.86[AMR][1000 genomes]
rs67575319	0.86[EUR][1000 genomes]
rs67700862	0.97[EUR][1000 genomes]
rs67956402	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67978476	0.88[AMR][1000 genomes]
rs67993159	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68082038	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68105619	0.88[AMR][1000 genomes]
rs6903344	0.85[ASN][1000 genomes]
rs6907107	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932733	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6933305	0.88[AMR][1000 genomes]
rs715207	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72906514	0.85[EUR][1000 genomes]
rs72922561	0.84[AMR][1000 genomes]
rs72922577	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72924341	0.86[ASN][1000 genomes]
rs72924342	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73498106	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747792	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7748286	0.89[EUR][1000 genomes]
rs7752473	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769144	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776049	0.86[EUR][1000 genomes]
rs9450782	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv1026482	chr6:88164934-88409728	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1027706	chr6:88168987-88409728	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	esv2758068	chr6:88358988-88441473	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	esv2759454	chr6:88358988-88441473	Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88300600-88391200	Weak transcription	Colonic Mucosa	Colon
2	chr6:88301200-88385000	Weak transcription	Colon Smooth Muscle	Colon
3	chr6:88305000-88398800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:88308800-88369800	Weak transcription	Fetal Brain Male	brain
5	chr6:88312200-88371200	Weak transcription	NHEK	skin
6	chr6:88312400-88380600	Weak transcription	Brain Substantia Nigra	brain
7	chr6:88314000-88384800	Weak transcription	Hela-S3	cervix
8	chr6:88314200-88399200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:88314600-88385000	Weak transcription	Esophagus	oesophagus
10	chr6:88316600-88381200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:88316600-88390000	Weak transcription	Pancreas	Pancrea
12	chr6:88320400-88400800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:88322800-88382000	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:88323000-88366400	Weak transcription	A549	lung
15	chr6:88324000-88369800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:88324000-88385000	Weak transcription	Gastric	stomach
17	chr6:88324200-88366600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr6:88324200-88369000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:88324200-88370200	Weak transcription	Psoas Muscle	Psoas
20	chr6:88324200-88378200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:88324200-88380400	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr6:88325400-88369200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:88329800-88383200	Weak transcription	Lung	lung
24	chr6:88333400-88384800	Weak transcription	Brain Angular Gyrus	brain
25	chr6:88338800-88369600	Weak transcription	HSMMtube	muscle
26	chr6:88339200-88396800	Weak transcription	Right Ventricle	heart
27	chr6:88340000-88370000	Weak transcription	Spleen	Spleen
28	chr6:88340200-88364400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr6:88340600-88364400	Weak transcription	NHLF	lung
30	chr6:88340600-88368400	Weak transcription	NHDF-Ad	bronchial
31	chr6:88344400-88384800	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:88346400-88369600	Weak transcription	NH-A	brain
33	chr6:88346600-88362800	Weak transcription	HMEC	breast
34	chr6:88346600-88363600	Weak transcription	Left Ventricle	heart
35	chr6:88346600-88366600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:88346600-88373800	Weak transcription	Fetal Kidney	kidney
37	chr6:88346600-88376400	Weak transcription	Brain Hippocampus Middle	brain
38	chr6:88347000-88366600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:88347800-88363000	Weak transcription	Primary hematopoietic stem cells	blood
40	chr6:88347800-88369200	Weak transcription	HSMM	muscle
41	chr6:88347800-88378000	Weak transcription	Fetal Brain Female	brain
42	chr6:88348000-88367000	Weak transcription	Osteobl	bone
43	chr6:88348000-88369200	Weak transcription	Aorta	Aorta
44	chr6:88348000-88385000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:88348600-88377600	Weak transcription	Brain Anterior Caudate	brain
46	chr6:88349000-88369600	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:88349200-88362800	Weak transcription	HepG2	liver
48	chr6:88349200-88373200	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr6:88349200-88381400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr6:88349400-88366800	Weak transcription	Primary monocytes fromperipheralblood	blood

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