Variant report

Variant	rs61821028
Chromosome Location	chr1:176101605-176101606
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10494499	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10913150	0.84[EUR][1000 genomes]
rs11579181	1.00[ASN][1000 genomes]
rs11579291	0.86[ASN][1000 genomes]
rs11587254	1.00[ASN][1000 genomes]
rs11587785	1.00[ASN][1000 genomes]
rs12403794	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12404181	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17351808	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17351933	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17352072	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17354252	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1770643	0.84[EUR][1000 genomes]
rs2481627	0.86[EUR][1000 genomes]
rs2481634	0.88[EUR][1000 genomes]
rs2481635	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2502830	0.88[EUR][1000 genomes]
rs2502832	0.88[EUR][1000 genomes]
rs2502836	0.88[EUR][1000 genomes]
rs2502841	0.88[EUR][1000 genomes]
rs2502842	0.84[EUR][1000 genomes]
rs2502847	0.91[EUR][1000 genomes]
rs2861630	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4601543	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4603086	0.84[EUR][1000 genomes]
rs4650934	0.92[EUR][1000 genomes]
rs471534	0.91[EUR][1000 genomes]
rs533403	0.84[EUR][1000 genomes]
rs553852	0.91[EUR][1000 genomes]
rs56192244	1.00[ASN][1000 genomes]
rs56367284	0.91[EUR][1000 genomes]
rs56943475	1.00[ASN][1000 genomes]
rs580978	0.84[EUR][1000 genomes]
rs60719126	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60964243	0.84[AMR][1000 genomes]
rs61186664	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs611883	0.89[EUR][1000 genomes]
rs61820953	0.88[AMR][1000 genomes]
rs61820960	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61820965	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61820968	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61820999	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61821007	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61821009	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61821029	0.91[EUR][1000 genomes]
rs61822662	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61822767	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6680309	0.81[AMR][1000 genomes]
rs704827	0.91[EUR][1000 genomes]
rs74127150	0.81[AMR][1000 genomes]
rs74127154	0.81[AMR][1000 genomes]
rs74127185	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7554913	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs791744	0.84[EUR][1000 genomes]
rs791800	0.84[EUR][1000 genomes]
rs791801	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking 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	33 gene(s)	inside rSNPs	diseases
2	nsv872562	chr1:175949646-176141866	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv872563	chr1:175949646-176184625	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv872564	chr1:176027978-176102808	Enhancers Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv548246	chr1:176043797-176136273	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv872565	chr1:176058782-176172795	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	esv3431861	chr1:176100979-176103402	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv2576730	chr1:176101571-176103178	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:176048800-176107000	Weak transcription	HepG2	liver
2	chr1:176054400-176131600	Weak transcription	NH-A	brain
3	chr1:176055000-176141600	Weak transcription	Hela-S3	cervix
4	chr1:176065600-176154800	Weak transcription	Aorta	Aorta
5	chr1:176069000-176116400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr1:176069000-176139200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:176069200-176123200	Weak transcription	Osteobl	bone
8	chr1:176069200-176126600	Weak transcription	HMEC	breast
9	chr1:176069200-176138800	Weak transcription	HUVEC	blood vessel
10	chr1:176069400-176121200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:176070400-176107400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr1:176070400-176126400	Weak transcription	Brain Anterior Caudate	brain
13	chr1:176070400-176151400	Weak transcription	Pancreas	Pancrea
14	chr1:176070800-176102200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr1:176070800-176102600	Weak transcription	Brain Hippocampus Middle	brain
16	chr1:176070800-176110600	Weak transcription	Small Intestine	intestine
17	chr1:176071600-176117800	Weak transcription	Gastric	stomach
18	chr1:176072000-176140600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr1:176072400-176108600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr1:176072600-176107400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr1:176072800-176114600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr1:176072800-176114800	Weak transcription	NHDF-Ad	bronchial
23	chr1:176072800-176126600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr1:176076200-176102000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr1:176076200-176126000	Weak transcription	Ovary	ovary
26	chr1:176076200-176127800	Weak transcription	Esophagus	oesophagus
27	chr1:176079800-176105400	Weak transcription	Colon Smooth Muscle	Colon
28	chr1:176080000-176103400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr1:176081200-176114800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr1:176083000-176126000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr1:176083600-176102600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr1:176083800-176106200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr1:176085400-176142400	Weak transcription	Lung	lung
34	chr1:176085600-176116400	Weak transcription	Adipose Nuclei	Adipose
35	chr1:176085600-176122200	Weak transcription	Left Ventricle	heart
36	chr1:176085600-176122600	Weak transcription	Thymus	Thymus
37	chr1:176085600-176126000	Weak transcription	Fetal Stomach	stomach
38	chr1:176085600-176128600	Weak transcription	Placenta	Placenta
39	chr1:176085800-176102400	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr1:176085800-176102600	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr1:176086000-176113000	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr1:176086000-176114800	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr1:176086200-176102400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr1:176087400-176122800	Weak transcription	NHEK	skin
45	chr1:176088600-176122800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr1:176089200-176111400	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr1:176090800-176126600	Weak transcription	Fetal Brain Male	brain
48	chr1:176091600-176117000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr1:176091800-176102400	Weak transcription	Liver	Liver
50	chr1:176092000-176104000	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links