Variant report

Variant	rs10461255
Chromosome Location	chr4:152116881-152116882
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:152111558..152113279-chr4:152114907..152117162,2	MCF-7	breast:
2	chr4:152116628..152118796-chr4:152119298..152121521,2	MCF-7	breast:
3	chr4:152114893..152116917-chr4:152120832..152122649,2	K562	blood:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10016092	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10020297	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10020317	0.90[ASN][1000 genomes]
rs10434137	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs10461254	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10520101	0.87[EUR][1000 genomes]
rs10520102	0.87[EUR][1000 genomes]
rs10776522	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11099792	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11099793	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11099796	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11734577	0.91[ASN][1000 genomes]
rs11934792	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11945206	0.81[ASN][1000 genomes]
rs12505974	0.81[ASN][1000 genomes]
rs12644496	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12647306	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12648512	0.90[ASN][1000 genomes]
rs13103344	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13111753	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13122245	0.82[ASN][1000 genomes]
rs13122609	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13125574	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13130167	0.82[ASN][1000 genomes]
rs2280280	0.81[ASN][1000 genomes]
rs2407222	0.81[ASN][1000 genomes]
rs2407223	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2407407	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407408	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407409	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407410	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407412	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407413	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2407417	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407418	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2407431	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2407438	0.91[ASN][1000 genomes]
rs2897655	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2897656	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3792611	0.86[ASN][1000 genomes]
rs4266274	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4312738	0.82[EUR][1000 genomes]
rs4467540	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4591577	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4696234	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4696239	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6827056	0.82[ASN][1000 genomes]
rs6832257	0.82[ASN][1000 genomes]
rs6846323	0.84[ASN][1000 genomes]
rs6846981	0.84[ASN][1000 genomes]
rs6847934	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7439970	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7664483	0.82[ASN][1000 genomes]
rs7669180	0.82[ASN][1000 genomes]
rs7688786	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7691584	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv948719	chr4:151693149-152161625	Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv880262	chr4:151712054-152519899	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
6	nsv881526	chr4:151968295-152489087	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv1016220	chr4:151997139-152164126	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	nsv537306	chr4:151997139-152164126	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv870229	chr4:152114410-152161072	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152096600-152118000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:152096800-152120600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:152097200-152123600	Weak transcription	Pancreas	Pancrea
4	chr4:152097200-152136600	Weak transcription	Colonic Mucosa	Colon
5	chr4:152097400-152123600	Weak transcription	Aorta	Aorta
6	chr4:152097600-152128800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:152097800-152117200	Weak transcription	Colon Smooth Muscle	Colon
8	chr4:152097800-152120000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr4:152098200-152117000	Weak transcription	Brain Anterior Caudate	brain
10	chr4:152098200-152118400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr4:152098400-152118400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr4:152098400-152147200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr4:152100600-152118000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr4:152106600-152117200	Weak transcription	Left Ventricle	heart
15	chr4:152107200-152120000	Weak transcription	HepG2	liver
16	chr4:152112000-152117200	Weak transcription	Lung	lung
17	chr4:152112200-152117200	Weak transcription	Right Atrium	heart
18	chr4:152112200-152120000	Weak transcription	Right Ventricle	heart
19	chr4:152112400-152117200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr4:152112400-152117200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr4:152112400-152120600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:152112600-152117200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr4:152112600-152117400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr4:152112800-152120000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr4:152113400-152124400	Weak transcription	Fetal Intestine Small	intestine
26	chr4:152113600-152117200	Weak transcription	Brain Hippocampus Middle	brain
27	chr4:152114400-152117000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr4:152114400-152117000	Weak transcription	HSMM	muscle
29	chr4:152114400-152117200	Weak transcription	Brain Substantia Nigra	brain
30	chr4:152114800-152118200	Weak transcription	HSMMtube	muscle
31	chr4:152115000-152117200	Weak transcription	Fetal Heart	heart
32	chr4:152115000-152117200	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr4:152115000-152118200	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr4:152115000-152124000	Weak transcription	Psoas Muscle	Psoas
35	chr4:152115600-152119800	Enhancers	Placenta Amnion	Placenta Amnion
36	chr4:152116000-152117200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr4:152116400-152117600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr4:152116600-152117000	Enhancers	NHDF-Ad	bronchial
39	chr4:152116600-152117200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr4:152116600-152117200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr4:152116600-152117200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr4:152116600-152117200	Enhancers	HMEC	breast
43	chr4:152116600-152117200	Enhancers	HUVEC	blood vessel
44	chr4:152116600-152117400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr4:152116600-152117600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr4:152116600-152117600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr4:152116600-152117600	Enhancers	Placenta	Placenta
48	chr4:152116600-152117600	Enhancers	NH-A	brain
49	chr4:152116600-152117800	Enhancers	Breast Myoepithelial Primary Cells	Breast
50	chr4:152116600-152118200	Enhancers	Adipose Nuclei	Adipose

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