Variant report

Variant	rs7611402
Chromosome Location	chr3:78851744-78851745
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11127635	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MEX][hapmap];0.96[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11712472	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11713976	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11716325	0.91[TSI][hapmap]
rs11718731	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12633168	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12633926	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12638686	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13065160	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13071446	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13083478	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1386431	0.80[JPT][hapmap]
rs162818	0.85[ASN][1000 genomes]
rs17016554	0.83[CHB][hapmap];0.87[YRI][hapmap]
rs1970807	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs333472	1.00[ASW][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];0.92[LWK][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs333490	0.82[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs34494591	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs34811803	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35056070	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35763568	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs35891410	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs35984348	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3856695	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs424737	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs444992	0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs60860653	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62257492	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs62257495	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62257496	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6773457	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7627461	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9637502	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv877019	chr3:78808850-78877217	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv432459	chr3:78819310-78874310	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78844200-78852800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:78844200-78853600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:78844400-78854000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:78850200-78852600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr3:78850600-78852800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr3:78850800-78852400	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr3:78850800-78854400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr3:78850800-78854400	Enhancers	Fetal Lung	lung
9	chr3:78851000-78853200	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr3:78851000-78854600	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr3:78851200-78852000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:78851200-78852400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr3:78851200-78852800	Enhancers	Primary T cells from cord blood	blood
14	chr3:78851400-78852200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:78851400-78853400	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr3:78851400-78854000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr3:78851400-78880400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr3:78851600-78851800	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr3:78851600-78852000	Enhancers	H1 Cell Line	embryonic stem cell
20	chr3:78851600-78852600	Enhancers	Brain Anterior Caudate	brain
21	chr3:78851600-78853000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:78851600-78853400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:78851600-78853600	Weak transcription	NHDF-Ad	bronchial
24	chr3:78851600-78853800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr3:78851600-78861200	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links