Variant report

Variant	rs6792870
Chromosome Location	chr3:159523497-159523498
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:159499592..159500128-chr3:159522767..159523524,2	MCF-7	breast:
2	chr3:158981206..158982290-chr3:159522701..159523950,4	MCF-7	breast:
3	chr3:158981274..158982171-chr3:159522659..159523603,3	K562	blood:
4	chr3:158978276..158980679-chr3:159523029..159524733,2	MCF-7	breast:
5	chr3:158984359..158985173-chr3:159522794..159523518,2	MCF-7	breast:
6	chr3:159499259..159500349-chr3:159522676..159523605,6	MCF-7	breast:
7	chr3:159479968..159483823-chr3:159521256..159524933,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11920991	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13064339	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs13065938	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs13066040	0.93[CEU][hapmap]
rs13066560	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs13067050	0.83[CEU][hapmap]
rs13075534	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs13077427	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes]
rs13078322	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs13100094	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes]
rs13100614	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs1553080	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16830748	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs16830780	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[EUR][1000 genomes]
rs2076889	0.85[CEU][hapmap]
rs2126142	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes]
rs2366405	0.92[CEU][hapmap]
rs62270390	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7631400	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7640429	0.81[CHD][hapmap]
rs9860588	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9880487	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.91[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];0.99[ASN][1000 genomes]
rs9884085	0.87[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159513400-159523600	Enhancers	Rectal Smooth Muscle	rectum
2	chr3:159516000-159524000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:159517200-159524000	Weak transcription	Liver	Liver
4	chr3:159517600-159524200	Weak transcription	NHEK	skin
5	chr3:159518000-159524400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:159518400-159531200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:159518800-159524400	Weak transcription	Left Ventricle	heart
8	chr3:159518800-159531800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:159520000-159526200	Enhancers	Brain Substantia Nigra	brain
10	chr3:159520000-159526400	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr3:159521200-159523600	Enhancers	Muscle Satellite Cultured Cells	--
12	chr3:159521600-159526200	Weak transcription	Fetal Stomach	stomach
13	chr3:159521800-159525800	Enhancers	Brain Angular Gyrus	brain
14	chr3:159521800-159525800	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr3:159521800-159526600	Enhancers	Brain Cingulate Gyrus	brain
16	chr3:159522000-159523600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:159522000-159523600	Enhancers	Fetal Muscle Leg	muscle
18	chr3:159522000-159524600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:159522200-159523600	Enhancers	HSMMtube	muscle
20	chr3:159522200-159524200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:159522200-159525800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr3:159522400-159523600	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr3:159522400-159525000	Enhancers	NHLF	lung
24	chr3:159522400-159525800	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr3:159522400-159526800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:159522600-159525600	Enhancers	HMEC	breast
27	chr3:159522600-159525800	Enhancers	NHDF-Ad	bronchial
28	chr3:159522600-159526600	Enhancers	Adipose Nuclei	Adipose
29	chr3:159522800-159525200	Enhancers	HSMM	muscle
30	chr3:159522800-159526400	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr3:159523000-159523800	Weak transcription	Aorta	Aorta
32	chr3:159523000-159524400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:159523000-159524400	Weak transcription	Ovary	ovary
34	chr3:159523000-159525800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:159523000-159526200	Enhancers	Brain Hippocampus Middle	brain
36	chr3:159523000-159526400	Enhancers	Colon Smooth Muscle	Colon
37	chr3:159523000-159531800	Weak transcription	Right Atrium	heart
38	chr3:159523000-159536200	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr3:159523200-159524200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:159523200-159524200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:159523200-159524400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr3:159523200-159524600	Enhancers	Placenta	Placenta
43	chr3:159523400-159523800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:159523400-159524200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr3:159523400-159524400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr3:159523400-159524400	Weak transcription	Brain Anterior Caudate	brain
47	chr3:159523400-159524400	Weak transcription	Right Ventricle	heart
48	chr3:159523400-159531600	Weak transcription	A549	lung
49	chr3:159523400-159532000	Weak transcription	Stomach Mucosa	stomach
50	chr3:159523400-159533000	Weak transcription	Osteobl	bone

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