Variant report

Variant	rs9295843
Chromosome Location	chr6:30281234-30281235
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30262142..30264727-chr6:30279624..30281654,2	K562	blood:
2	chr6:30280311..30284276-chr6:30285910..30291583,5	MCF-7	breast:
3	chr6:30279320..30281326-chr6:30292581..30294397,2	MCF-7	breast:
4	chr6:30279858..30281828-chr6:30312382..30314728,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204599	Chromatin interaction
ENSG00000270604	Chromatin interaction
ENSG00000241370	Chromatin interaction
ENSG00000231074	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1045251	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1060065	0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1264616	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1473102	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1579218	0.80[ASN][1000 genomes]
rs1579219	0.80[ASN][1000 genomes]
rs2023476	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2023477	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2023478	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2057727	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2074474	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2097773	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2285798	0.82[ASN][1000 genomes]
rs2394779	0.83[ASN][1000 genomes]
rs2394780	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2508026	0.81[EUR][1000 genomes]
rs2516697	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2516699	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516700	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516702	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516704	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516705	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516706	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2516707	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516710	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516713	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2516718	0.81[AFR][1000 genomes]
rs2523737	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2523744	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2523745	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2523746	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2523747	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2523748	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2523750	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs261943	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs261948	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs261949	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28360021	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28360023	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2844752	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2844761	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2844763	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2844765	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2894145	0.81[ASN][1000 genomes]
rs3778624	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3778626	0.81[ASN][1000 genomes]
rs6904208	0.87[AFR][1000 genomes]
rs6912239	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912495	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7452694	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7767653	0.83[AFR][1000 genomes]
rs7767817	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9295844	0.83[ASN][1000 genomes]
rs9357095	0.83[ASN][1000 genomes]
rs9366755	0.82[ASN][1000 genomes]
rs9368628	0.83[ASN][1000 genomes]
rs9368632	0.83[ASN][1000 genomes]
rs9368633	0.83[ASN][1000 genomes]
rs9380168	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9380174	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9391679	0.83[ASN][1000 genomes]
rs9391806	0.83[ASN][1000 genomes]
rs9391807	0.83[ASN][1000 genomes]
rs9393999	0.83[ASN][1000 genomes]
rs9394000	0.83[ASN][1000 genomes]
rs9394001	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394002	0.81[ASN][1000 genomes]
rs9394003	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs962899	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs974963	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs9295843	LOC401245	cis	multi-tissue	Pritchard
rs9295843	FOXF1	cis	Liver	GTEx
rs9295843	ABCF1	cis	multi-tissue	Pritchard
rs9295843	FLJ45422	cis	multi-tissue	Pritchard
rs9295843	TRIM39	cis	multi-tissue	Pritchard
rs9295843	HCG18	cis	multi-tissue	Pritchard
rs9295843	FOXF1	trans	multi-tissue	Pritchard
rs9295843	HCG18	cis	normal skin	skin_eQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30256200-30292000	Weak transcription	Fetal Heart	heart
2	chr6:30257600-30292800	Weak transcription	Fetal Kidney	kidney
3	chr6:30259000-30287200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:30262600-30292400	Weak transcription	Pancreas	Pancrea
5	chr6:30262800-30283200	Weak transcription	NHLF	lung
6	chr6:30262800-30290200	Weak transcription	Spleen	Spleen
7	chr6:30263000-30281400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:30263000-30282000	Weak transcription	Psoas Muscle	Psoas
9	chr6:30263000-30293000	Weak transcription	Brain Substantia Nigra	brain
10	chr6:30263200-30281600	Weak transcription	Right Ventricle	heart
11	chr6:30264200-30286600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr6:30264200-30289800	Weak transcription	Gastric	stomach
13	chr6:30264400-30285200	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:30269200-30285800	Strong transcription	Dnd41	blood
15	chr6:30270400-30283800	Weak transcription	Colonic Mucosa	Colon
16	chr6:30270600-30292600	Weak transcription	Esophagus	oesophagus
17	chr6:30270800-30281600	Weak transcription	Fetal Lung	lung
18	chr6:30270800-30292200	Weak transcription	NHDF-Ad	bronchial
19	chr6:30271000-30281600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:30271000-30292400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:30271000-30292800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr6:30271400-30281400	Weak transcription	Brain Anterior Caudate	brain
23	chr6:30271400-30282200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr6:30271400-30291400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:30272200-30292200	Weak transcription	Fetal Brain Male	brain
26	chr6:30272400-30289600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr6:30273200-30281600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:30273800-30281400	Weak transcription	Brain Germinal Matrix	brain
29	chr6:30274400-30285400	Strong transcription	Primary B cells from cord blood	blood
30	chr6:30274600-30292200	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:30274600-30292600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr6:30275000-30281400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr6:30275200-30286400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:30275400-30281400	Weak transcription	Hela-S3	cervix
35	chr6:30275400-30286800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:30275400-30293400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:30276200-30284800	Strong transcription	Primary T cells from cord blood	blood
38	chr6:30276400-30283800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr6:30276600-30285200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr6:30277000-30284200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr6:30277000-30284800	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr6:30277400-30284200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr6:30278200-30281400	Weak transcription	A549	lung
44	chr6:30278200-30281600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr6:30278200-30284000	Weak transcription	Placenta	Placenta
46	chr6:30278200-30292400	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:30278400-30281600	Weak transcription	Thymus	Thymus
48	chr6:30279000-30282800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr6:30279000-30284600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr6:30279000-30284800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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