Variant report

Variant	rs352007
Chromosome Location	chr4:74847292-74847293
allele	C/G
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:59)

rs_ID	r²[population]
rs1025596	0.82[EUR][1000 genomes]
rs1156553	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs1156554	0.90[CEU][hapmap]
rs13117734	0.84[EUR][1000 genomes]
rs1594229	0.84[EUR][1000 genomes]
rs1594230	0.84[EUR][1000 genomes]
rs164615	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs164617	0.84[EUR][1000 genomes]
rs168449	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs168450	0.84[EUR][1000 genomes]
rs16850352	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16850354	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1821623	0.84[EUR][1000 genomes]
rs183028	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1836663	0.84[EUR][1000 genomes]
rs187080	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs189511	0.84[EUR][1000 genomes]
rs1898002	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs191601	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs193263	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2043537	0.84[EUR][1000 genomes]
rs2117721	0.84[EUR][1000 genomes]
rs240610	0.84[EUR][1000 genomes]
rs2437285	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2457996	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2472655	0.84[EUR][1000 genomes]
rs2564594	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs351997	0.84[EUR][1000 genomes]
rs352009	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs352010	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs352013	0.84[EUR][1000 genomes]
rs352018	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs352023	0.84[EUR][1000 genomes]
rs352024	0.84[EUR][1000 genomes]
rs352026	0.84[EUR][1000 genomes]
rs352027	0.84[EUR][1000 genomes]
rs352045	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs352046	0.86[EUR][1000 genomes]
rs352047	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs3756075	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs377579	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs394408	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs409336	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs416046	0.80[CEU][hapmap];0.80[EUR][1000 genomes]
rs420389	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs425535	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs426901	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs434988	0.84[EUR][1000 genomes]
rs440676	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs442155	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs447206	0.90[CEU][hapmap];0.94[EUR][1000 genomes]
rs450373	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4694656	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs487834	0.84[EUR][1000 genomes]
rs552582	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs599746	0.84[EUR][1000 genomes]
rs614822	0.84[EUR][1000 genomes]
rs6820253	0.84[EUR][1000 genomes]
rs6838264	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv525980	chr4:74731526-75382209	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv1004768	chr4:74774372-75109579	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1006218	chr4:74782324-75105424	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv1006029	chr4:74793922-74986664	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74837000-74850800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:74843600-74847400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr4:74843800-74847400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:74845200-74847400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr4:74845200-74850600	Weak transcription	NHDF-Ad	bronchial
6	chr4:74845400-74847400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr4:74845400-74853400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr4:74845600-74847400	Weak transcription	A549	lung
9	chr4:74845600-74847400	Weak transcription	NHLF	lung
10	chr4:74845600-74848000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr4:74845600-74853000	Weak transcription	K562	blood
12	chr4:74846200-74849400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr4:74846400-74847600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr4:74846600-74847400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr4:74846800-74847600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr4:74847000-74847400	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr4:74847000-74847600	Enhancers	Gastric	stomach
18	chr4:74847000-74847600	Enhancers	Lung	lung
19	chr4:74847000-74847800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
20	chr4:74847000-74848000	Active TSS	ES-I3 Cell Line	embryonic stem cell
21	chr4:74847000-74848000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr4:74847000-74848600	Enhancers	H1 Cell Line	embryonic stem cell
23	chr4:74847200-74847400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr4:74847200-74847400	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr4:74847200-74847400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr4:74847200-74847400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr4:74847200-74847400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr4:74847200-74847400	Enhancers	Adipose Nuclei	Adipose
29	chr4:74847200-74847400	Enhancers	Fetal Intestine Large	intestine
30	chr4:74847200-74847400	Active TSS	HSMM	muscle
31	chr4:74847200-74847400	Enhancers	HUVEC	blood vessel
32	chr4:74847200-74847800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
33	chr4:74847200-74847800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
34	chr4:74847200-74847800	Bivalent Enhancer	Placenta	Placenta
35	chr4:74847200-74847800	Active TSS	NHEK	skin
36	chr4:74847200-74848000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr4:74847200-74848200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links