Variant report

Variant	rs390203
Chromosome Location	chr1:57785048-57785049
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10047071	1.00[JPT][hapmap]
rs10047073	1.00[JPT][hapmap]
rs10493219	1.00[JPT][hapmap]
rs10493225	1.00[JPT][hapmap]
rs1077424	0.92[CEU][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1077425	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10889034	0.84[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10889035	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10889036	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10889037	0.82[EUR][1000 genomes]
rs10889038	0.85[CEU][hapmap]
rs10889039	0.85[CEU][hapmap]
rs10889044	1.00[JPT][hapmap]
rs11207010	0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11207011	0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11207012	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207013	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11207014	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207015	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207016	0.85[CEU][hapmap]
rs11207027	0.82[JPT][hapmap]
rs1149630	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11585751	1.00[JPT][hapmap]
rs11590708	0.85[CEU][hapmap]
rs12044912	1.00[JPT][hapmap]
rs12046102	1.00[JPT][hapmap]
rs12061812	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12085326	0.86[ASN][1000 genomes]
rs12087888	0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12119147	0.82[EUR][1000 genomes]
rs12119210	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs12126723	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs12128305	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12132685	1.00[JPT][hapmap]
rs12136107	1.00[JPT][hapmap]
rs12137169	1.00[JPT][hapmap]
rs12137583	0.81[ASN][1000 genomes]
rs12142821	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12240237	0.85[CEU][hapmap];0.85[JPT][hapmap]
rs1240439	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1240442	1.00[JPT][hapmap]
rs12405761	1.00[JPT][hapmap]
rs12565446	0.85[CEU][hapmap]
rs12565636	0.85[CEU][hapmap]
rs12568449	1.00[JPT][hapmap]
rs12726704	1.00[JPT][hapmap]
rs12752978	1.00[JPT][hapmap]
rs1334239	1.00[JPT][hapmap]
rs1334240	1.00[JPT][hapmap]
rs1364444	0.80[EUR][1000 genomes]
rs1424462	0.85[CEU][hapmap]
rs1424463	0.85[CEU][hapmap];0.85[JPT][hapmap]
rs1424464	0.85[CEU][hapmap]
rs1424466	0.85[CEU][hapmap]
rs1424467	0.85[CEU][hapmap];0.82[JPT][hapmap]
rs1424468	0.80[EUR][1000 genomes]
rs1424469	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs1424470	0.90[EUR][1000 genomes]
rs1504594	0.93[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs166514	0.96[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17115686	1.00[JPT][hapmap]
rs17423255	0.85[CEU][hapmap]
rs17424216	1.00[JPT][hapmap]
rs17425017	1.00[JPT][hapmap]
rs17425189	1.00[JPT][hapmap]
rs17456661	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17457873	0.82[JPT][hapmap]
rs17459384	1.00[JPT][hapmap]
rs17459948	1.00[JPT][hapmap]
rs1809976	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1834151	0.85[CEU][hapmap]
rs2113456	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2161808	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2216808	1.00[JPT][hapmap]
rs2405696	1.00[JPT][hapmap]
rs2405994	1.00[JPT][hapmap]
rs267638	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs267646	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs267647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs267650	0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2781325	1.00[JPT][hapmap]
rs28706213	0.86[ASN][1000 genomes]
rs35804651	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs374845	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3909556	1.00[JPT][hapmap]
rs4279875	1.00[JPT][hapmap]
rs439378	0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4912162	0.81[ASN][1000 genomes]
rs4912163	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4912237	0.81[ASN][1000 genomes]
rs4912244	1.00[JPT][hapmap]
rs55863020	0.81[ASN][1000 genomes]
rs61769668	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6669975	1.00[JPT][hapmap]
rs6677561	0.90[EUR][1000 genomes]
rs736109	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs736110	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs746937	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7513076	1.00[JPT][hapmap]
rs7535763	1.00[JPT][hapmap]
rs7543805	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7547509	0.81[ASN][1000 genomes]
rs77510	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs77511	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs882283	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs90940	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs924848	0.89[ASN][1000 genomes]
rs94216	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9436130	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv871943	chr1:57784144-57855876	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57773200-57790200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:57776600-57790200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:57780400-57787000	Weak transcription	Fetal Brain Male	brain
4	chr1:57784000-57785400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:57784600-57785200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:57784600-57785200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr1:57784600-57785200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr1:57784600-57785200	Enhancers	Fetal Muscle Leg	muscle
9	chr1:57784600-57785400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr1:57784600-57785400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:57784600-57785400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:57784600-57785400	Enhancers	Fetal Brain Female	brain
13	chr1:57784600-57785600	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr1:57784600-57785600	Enhancers	Hela-S3	cervix
15	chr1:57784600-57785800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr1:57784600-57785800	Enhancers	Fetal Lung	lung
17	chr1:57784600-57786000	Enhancers	Duodenum Mucosa	Duodenum
18	chr1:57784800-57785200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:57784800-57785200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr1:57784800-57785200	Enhancers	HMEC	breast
21	chr1:57784800-57785400	Enhancers	NHEK	skin
22	chr1:57784800-57785600	Weak transcription	Brain Angular Gyrus	brain
23	chr1:57784800-57785600	Enhancers	Fetal Stomach	stomach
24	chr1:57784800-57786000	Enhancers	Fetal Intestine Large	intestine
25	chr1:57784800-57786000	Enhancers	Fetal Intestine Small	intestine
26	chr1:57785000-57785400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links