Variant report

Variant	rs3777582
Chromosome Location	chr6:45914028-45914029
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:45898210..45898759-chr6:45913836..45914644,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1001938	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[MKK][hapmap];0.80[TSI][hapmap];0.94[ASN][1000 genomes]
rs11757345	0.97[ASN][1000 genomes]
rs1204333	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1204334	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1204335	0.94[ASN][1000 genomes]
rs12192179	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12198337	0.87[ASN][1000 genomes]
rs12211807	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1308732	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1890368	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs1890369	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1999908	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[MKK][hapmap];0.80[TSI][hapmap];0.97[ASN][1000 genomes]
rs2396580	0.97[ASN][1000 genomes]
rs3734206	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.90[MEX][hapmap];0.95[MKK][hapmap];0.86[TSI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3777583	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.90[MEX][hapmap];0.98[MKK][hapmap];0.86[TSI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3777587	0.97[ASN][1000 genomes]
rs3777589	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[TSI][hapmap];0.97[ASN][1000 genomes]
rs3777590	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs3777591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3777592	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4236087	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4236088	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4236089	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4429946	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4563714	0.97[ASN][1000 genomes]
rs4711834	0.97[ASN][1000 genomes]
rs4711835	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4711836	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4711837	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4714892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];0.80[TSI][hapmap];0.96[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4714893	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4714894	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4714895	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6909306	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6922752	0.97[ASN][1000 genomes]
rs73460651	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv517891	chr6:45899823-45915088	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3777582	FABP4	trans	brain	seeQTL

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45898600-45914600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:45898600-45916800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:45898800-45919200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:45903000-45917200	Strong transcription	Fetal Intestine Large	intestine
5	chr6:45903400-45914400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:45907000-45916600	Weak transcription	Pancreas	Pancrea
7	chr6:45907400-45917600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:45907800-45916400	Strong transcription	Rectal Mucosa Donor 31	rectum
9	chr6:45908000-45918600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr6:45908200-45918200	Weak transcription	Colonic Mucosa	Colon
11	chr6:45908800-45914600	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:45910600-45915400	Enhancers	Fetal Heart	heart
13	chr6:45911000-45919200	Weak transcription	Small Intestine	intestine
14	chr6:45911000-45923600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:45911200-45918000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:45911400-45919000	Weak transcription	Adipose Nuclei	Adipose
17	chr6:45911600-45914200	Weak transcription	Lung	lung
18	chr6:45911600-45914200	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr6:45911800-45914600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:45912400-45914600	Enhancers	Psoas Muscle	Psoas
21	chr6:45912400-45917200	Genic enhancers	Left Ventricle	heart
22	chr6:45912600-45915400	Genic enhancers	Right Ventricle	heart
23	chr6:45912600-45916600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr6:45912600-45923000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
25	chr6:45912800-45928400	Weak transcription	Spleen	Spleen
26	chr6:45913200-45914600	Enhancers	Fetal Muscle Leg	muscle
27	chr6:45913400-45914200	Enhancers	Fetal Lung	lung
28	chr6:45913400-45914400	Enhancers	Fetal Stomach	stomach
29	chr6:45913400-45915000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:45913400-45919000	Strong transcription	Fetal Intestine Small	intestine
31	chr6:45913800-45914200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:45913800-45914200	Enhancers	Fetal Kidney	kidney
33	chr6:45913800-45914400	Enhancers	Ovary	ovary
34	chr6:45913800-45914600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:45913800-45914600	Enhancers	Stomach Smooth Muscle	stomach
36	chr6:45913800-45914600	Enhancers	Osteobl	bone
37	chr6:45913800-45914800	Enhancers	NHDF-Ad	bronchial
38	chr6:45913800-45915000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:45913800-45915000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:45913800-45915200	Enhancers	Placenta Amnion	Placenta Amnion
41	chr6:45913800-45915200	Enhancers	Right Atrium	heart
42	chr6:45913800-45920000	Enhancers	Placenta	Placenta
43	chr6:45914000-45914200	Enhancers	Rectal Smooth Muscle	rectum
44	chr6:45914000-45915000	Enhancers	NHLF	lung

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