Variant report

Variant	rs60031820
Chromosome Location	chr1:113514167-113514168
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:113513357..113514885-chr1:113518512..113520310,2	K562	blood:
2	chr1:113513681..113515239-chr1:113517369..113521086,3	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10158316	1.00[EUR][1000 genomes]
rs12059435	1.00[EUR][1000 genomes]
rs12067118	1.00[EUR][1000 genomes]
rs12070103	1.00[EUR][1000 genomes]
rs12070165	1.00[EUR][1000 genomes]
rs17030801	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17030825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17030972	1.00[EUR][1000 genomes]
rs17031107	1.00[EUR][1000 genomes]
rs3866218	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3892517	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41510545	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55879014	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57514267	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57546902	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58175041	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60103137	1.00[EUR][1000 genomes]
rs60860858	1.00[EUR][1000 genomes]
rs61134101	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6657154	1.00[EUR][1000 genomes]
rs6678201	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6694556	1.00[EUR][1000 genomes]
rs6697225	1.00[EUR][1000 genomes]
rs72982471	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72984355	1.00[EUR][1000 genomes]
rs72986328	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72986329	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72986335	1.00[EUR][1000 genomes]
rs72986336	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72986345	1.00[EUR][1000 genomes]
rs73000304	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73000323	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73000328	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7531239	1.00[EUR][1000 genomes]
rs7534668	1.00[EUR][1000 genomes]
rs7539797	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7540353	1.00[AMR][1000 genomes]
rs7541153	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9308259	1.00[EUR][1000 genomes]
rs9429498	1.00[EUR][1000 genomes]
rs9429499	1.00[EUR][1000 genomes]
rs9429502	1.00[EUR][1000 genomes]
rs9429699	1.00[EUR][1000 genomes]
rs9429703	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002971	chr1:112924725-113740584	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv535059	chr1:112924725-113740584	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
3	nsv1010276	chr1:113123932-113740584	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
4	nsv533295	chr1:113167645-113589588	Flanking Active TSS Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
5	nsv1012119	chr1:113214869-113759081	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
6	nsv535060	chr1:113214869-113759081	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
7	nsv529238	chr1:113229946-113759080	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases
8	nsv997426	chr1:113288282-113639507	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
9	nsv1004102	chr1:113295805-113551210	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS 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	60 gene(s)	inside rSNPs	diseases
10	esv3399982	chr1:113358580-113542255	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
11	nsv999915	chr1:113360145-113684833	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats 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	69 gene(s)	inside rSNPs	diseases
12	esv18293	chr1:113375437-113852815	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
13	nsv1007045	chr1:113425222-113839910	Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
14	esv1827123	chr1:113496841-113531848	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:113499600-113525600	Weak transcription	Spleen	Spleen
2	chr1:113499800-113514800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr1:113500200-113524600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr1:113500200-113528600	Weak transcription	Lung	lung
5	chr1:113500200-113529000	Weak transcription	Esophagus	oesophagus
6	chr1:113500400-113520200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:113500600-113515000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:113500600-113535400	Weak transcription	Aorta	Aorta
9	chr1:113500800-113515400	Weak transcription	Fetal Kidney	kidney
10	chr1:113500800-113515800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr1:113501000-113525600	Weak transcription	Brain Angular Gyrus	brain
12	chr1:113501600-113515600	Weak transcription	Thymus	Thymus
13	chr1:113502000-113520600	Weak transcription	Fetal Brain Male	brain
14	chr1:113503000-113515000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:113503000-113519600	Weak transcription	Brain Germinal Matrix	brain
16	chr1:113503400-113515600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr1:113503600-113525400	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr1:113504800-113516000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr1:113507600-113520800	Weak transcription	Fetal Heart	heart
20	chr1:113507600-113524400	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:113508000-113520800	Weak transcription	Ovary	ovary
22	chr1:113510400-113520800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:113510600-113515200	Weak transcription	Primary hematopoietic stem cells	blood
24	chr1:113510600-113521600	Weak transcription	Fetal Brain Female	brain
25	chr1:113510600-113524600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr1:113510600-113537000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr1:113510800-113515600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr1:113510800-113516400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr1:113510800-113517000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr1:113510800-113522200	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr1:113510800-113541800	Weak transcription	Fetal Muscle Trunk	muscle
32	chr1:113511000-113516600	Weak transcription	Left Ventricle	heart
33	chr1:113511000-113517200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr1:113511000-113519800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr1:113511000-113525200	Weak transcription	Colon Smooth Muscle	Colon
36	chr1:113511000-113525600	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr1:113511000-113528600	Weak transcription	Right Ventricle	heart
38	chr1:113511000-113531200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr1:113511200-113515000	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr1:113511200-113515000	Weak transcription	Fetal Thymus	thymus
41	chr1:113511200-113515400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr1:113511200-113515400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr1:113511200-113516400	Weak transcription	HepG2	liver
44	chr1:113511200-113517000	Weak transcription	Brain Anterior Caudate	brain
45	chr1:113511200-113517000	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr1:113511200-113517200	Weak transcription	Brain Hippocampus Middle	brain
47	chr1:113511200-113517200	Weak transcription	HUVEC	blood vessel
48	chr1:113511200-113519400	Weak transcription	A549	lung
49	chr1:113511200-113519800	Weak transcription	Placenta	Placenta
50	chr1:113511200-113521000	Weak transcription	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links