Variant report

Variant	rs9296158
Chromosome Location	chr6:35567082-35567083
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35549292..35552152-chr6:35564956..35567156,2	MCF-7	breast:
2	chr6:35561670..35563594-chr6:35565549..35568332,2	K562	blood:
3	chr17:57921307..57924018-chr6:35566994..35568536,2	MCF-7	breast:
4	chr6:35566723..35569701-chr6:35703866..35705522,2	K562	blood:

Variant related genes	Relation type
ENSG00000157343	Chromatin interaction
ENSG00000232909	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12055438	0.83[EUR][1000 genomes]
rs1360780	0.85[CEU][hapmap];0.93[CHB][hapmap];0.99[EUR][1000 genomes]
rs1591365	0.99[EUR][1000 genomes]
rs2395634	0.85[CEU][hapmap];0.93[CHB][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3798347	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800372	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3800373	0.80[CEU][hapmap];0.93[CHB][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4713904	0.81[CHB][hapmap]
rs6902124	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6902321	0.80[JPT][hapmap]
rs6929873	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6931118	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7751598	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296159	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9357201	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9357202	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9368878	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9368881	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9368885	0.84[EUR][1000 genomes]
rs9380522	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9380525	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9380526	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9470080	0.88[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758048	chr6:35463741-35806504	Genic enhancers Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2759420	chr6:35463741-35806504	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv2761067	chr6:35471246-35573245	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1031987	chr6:35476562-35579375	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv462913	chr6:35502202-35592744	Enhancers Genic enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv602923	chr6:35502202-35592744	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS 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 miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv517211	chr6:35502202-35607571	Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1026532	chr6:35502604-35568562	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv1021675	chr6:35502604-35569281	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv1023091	chr6:35502604-35573233	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv1017625	chr6:35505311-35576552	Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
12	nsv1019593	chr6:35505311-35579375	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv602924	chr6:35505311-35750299	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
14	nsv1022049	chr6:35506731-35576552	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
15	nsv1026200	chr6:35507179-35568562	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
16	nsv1025296	chr6:35507179-35579375	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
17	nsv885801	chr6:35537406-35671651	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
18	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9296158	FKBP5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35534400-35569000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:35539800-35568400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:35541200-35570200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:35545000-35567800	Weak transcription	Stomach Mucosa	stomach
5	chr6:35545000-35568800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:35545000-35601800	Weak transcription	Fetal Intestine Small	intestine
7	chr6:35545200-35568800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:35545400-35569200	Weak transcription	Placenta	Placenta
9	chr6:35554800-35569200	Weak transcription	Fetal Intestine Large	intestine
10	chr6:35555000-35568000	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:35555400-35568800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:35555400-35569000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:35556200-35567800	Weak transcription	Primary B cells from cord blood	blood
14	chr6:35557600-35569000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr6:35558600-35569200	Weak transcription	Fetal Muscle Leg	muscle
16	chr6:35558600-35580400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:35559000-35567800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:35560200-35567600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr6:35560400-35568400	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:35561200-35567600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr6:35561200-35567800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr6:35562600-35568600	Weak transcription	GM12878-XiMat	blood
23	chr6:35563200-35567400	Weak transcription	Colon Smooth Muscle	Colon
24	chr6:35564800-35567800	Weak transcription	Fetal Stomach	stomach
25	chr6:35565000-35567200	Weak transcription	Brain Anterior Caudate	brain
26	chr6:35565000-35567200	Weak transcription	Brain Hippocampus Middle	brain
27	chr6:35565000-35567800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:35565000-35568800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:35565000-35569200	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:35565200-35567200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:35565200-35567200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr6:35565200-35567200	Weak transcription	Small Intestine	intestine
33	chr6:35565200-35567200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr6:35565200-35567400	Enhancers	Primary T cells from cord blood	blood
35	chr6:35565200-35567400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr6:35565200-35567600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:35565200-35567600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr6:35565200-35567800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:35565200-35567800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr6:35565200-35567800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr6:35565200-35567800	Weak transcription	Brain Angular Gyrus	brain
42	chr6:35565200-35567800	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr6:35565200-35567800	Weak transcription	NHDF-Ad	bronchial
44	chr6:35565200-35567800	Weak transcription	NHLF	lung
45	chr6:35565200-35568400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr6:35565200-35568400	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr6:35565200-35568400	Weak transcription	HepG2	liver
48	chr6:35565200-35568600	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr6:35565200-35568600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr6:35565200-35568600	Enhancers	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links