Variant report

Variant	rs9493437
Chromosome Location	chr6:133088405-133088406
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:133087351..133089445-chr6:133103632..133105923,2	K562	blood:
2	chr6:133083989..133085600-chr6:133087934..133090134,2	K562	blood:
3	chr6:133087784..133090959-chr6:133133701..133137083,7	K562	blood:

Variant related genes	Relation type
ENSG00000112306	Chromatin interaction
ENSG00000206754	Chromatin interaction
ENSG00000112303	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10457591	1.00[CHB][hapmap]
rs10457596	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10484629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1122175	0.96[YRI][hapmap];0.95[AFR][1000 genomes]
rs1128998	1.00[CHB][hapmap]
rs11962883	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11964512	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190684	1.00[CHB][hapmap]
rs12197430	1.00[CHB][hapmap]
rs12198849	0.83[ASN][1000 genomes]
rs12203977	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12204027	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12211701	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1467403	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1467404	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17061476	1.00[CHB][hapmap]
rs3813347	1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58832890	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61421874	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62424539	0.83[ASN][1000 genomes]
rs6569847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569848	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910639	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6912936	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915168	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6934161	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73554431	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7738071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7738400	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs7753595	0.87[AFR][1000 genomes]
rs7758703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761365	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765224	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769051	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7770081	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321367	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9321371	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9375919	1.00[CHB][hapmap]
rs9389032	1.00[CHB][hapmap]
rs9399041	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9402452	1.00[CHB][hapmap]
rs9402453	1.00[CHB][hapmap]
rs9402455	1.00[CHB][hapmap]
rs9493435	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9493438	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493443	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493444	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493445	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493446	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493454	1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.86[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	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9493437	C6orf192	Cis_1M	lymphoblastoid	RTeQTL
rs9493437	C6orf192	cis	multi-tissue	Pritchard

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133061400-133098000	Weak transcription	Spleen	Spleen
2	chr6:133065000-133098000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:133081400-133096800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:133083400-133090600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:133083600-133099000	Weak transcription	Left Ventricle	heart
6	chr6:133083800-133118200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:133084000-133089000	Weak transcription	Fetal Intestine Small	intestine
8	chr6:133084600-133091200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:133084800-133089400	Weak transcription	Fetal Thymus	thymus
10	chr6:133084800-133091800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:133084800-133097000	Weak transcription	Fetal Muscle Leg	muscle
12	chr6:133085000-133109000	Weak transcription	GM12878-XiMat	blood
13	chr6:133085000-133114600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:133085000-133119000	Weak transcription	Thymus	Thymus
15	chr6:133085200-133089800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:133085200-133090000	Weak transcription	Primary B cells from cord blood	blood
17	chr6:133085200-133112200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:133085200-133119400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:133085400-133089000	Weak transcription	Primary B cells from peripheral blood	blood
20	chr6:133085400-133089200	Weak transcription	Liver	Liver
21	chr6:133085400-133090000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr6:133085400-133091200	Weak transcription	Primary T cells from cord blood	blood
23	chr6:133085400-133091200	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:133085400-133114400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr6:133085600-133089000	Weak transcription	Stomach Mucosa	stomach
26	chr6:133085600-133090400	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr6:133085600-133090800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:133085600-133098800	Weak transcription	Brain Hippocampus Middle	brain
29	chr6:133085600-133099800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr6:133085600-133118800	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:133085800-133088800	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr6:133085800-133089000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:133085800-133089000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:133085800-133089200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr6:133085800-133089200	Weak transcription	Lung	lung
36	chr6:133085800-133090000	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr6:133085800-133091000	Weak transcription	Fetal Lung	lung
38	chr6:133085800-133091200	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr6:133085800-133091200	Weak transcription	Placenta	Placenta
40	chr6:133085800-133091200	Weak transcription	Ovary	ovary
41	chr6:133085800-133093200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:133085800-133100000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr6:133085800-133100000	Weak transcription	Aorta	Aorta
44	chr6:133085800-133119000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr6:133086000-133089200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:133086000-133089200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr6:133086000-133090000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr6:133086000-133093600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:133086000-133112800	Weak transcription	Hela-S3	cervix
50	chr6:133086000-133113800	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links