Variant report

Variant	rs7928170
Chromosome Location	chr11:10178845-10178846
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10500722	0.92[YRI][hapmap]
rs10500724	0.89[YRI][hapmap]
rs10734652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs10743131	0.83[EUR][1000 genomes]
rs10770080	0.82[JPT][hapmap]
rs10770082	1.00[CHB][hapmap]
rs10770084	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10770085	0.92[EUR][1000 genomes]
rs10770096	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10770104	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10840346	1.00[CHB][hapmap]
rs10840357	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10840358	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10840363	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10840364	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10840369	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.81[ASN][1000 genomes]
rs10840380	0.80[EUR][1000 genomes]
rs11042598	0.85[EUR][1000 genomes]
rs11042617	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs11042621	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11042622	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs11042633	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs11042687	0.82[EUR][1000 genomes]
rs11042702	0.88[YRI][hapmap];0.82[EUR][1000 genomes]
rs11042703	0.82[EUR][1000 genomes]
rs11602090	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs12279861	0.82[EUR][1000 genomes]
rs12288355	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12290748	0.82[EUR][1000 genomes]
rs12360854	1.00[CHB][hapmap]
rs12419593	0.82[EUR][1000 genomes]
rs1442738	0.82[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2044143	0.82[EUR][1000 genomes]
rs2044144	0.81[EUR][1000 genomes]
rs2083715	0.85[EUR][1000 genomes]
rs2083716	0.87[EUR][1000 genomes]
rs2083717	0.90[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs2403230	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2403259	0.81[JPT][hapmap]
rs2403264	1.00[CHB][hapmap]
rs2403268	0.82[EUR][1000 genomes]
rs4267063	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs4323860	0.88[YRI][hapmap];0.92[EUR][1000 genomes]
rs4466825	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4482025	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs4509749	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4597056	0.92[YRI][hapmap];0.81[EUR][1000 genomes]
rs4910097	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4910107	0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4910108	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4910115	0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs55933041	0.82[EUR][1000 genomes]
rs56063978	0.84[EUR][1000 genomes]
rs6483883	0.80[EUR][1000 genomes]
rs6483966	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs6483970	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6484147	0.92[YRI][hapmap]
rs6484152	0.89[YRI][hapmap]
rs7102016	1.00[CHB][hapmap];0.89[JPT][hapmap];0.96[YRI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7106998	0.87[EUR][1000 genomes]
rs7107290	0.89[YRI][hapmap]
rs7110312	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs7115944	0.90[JPT][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7116147	0.82[EUR][1000 genomes]
rs7119000	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7121704	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7123728	0.85[YRI][hapmap];0.93[EUR][1000 genomes]
rs7126376	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs7128698	0.84[EUR][1000 genomes]
rs716803	0.84[EUR][1000 genomes]
rs726102	0.88[YRI][hapmap];0.81[EUR][1000 genomes]
rs7479039	0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs7924499	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7932988	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7938543	0.89[YRI][hapmap];0.85[EUR][1000 genomes]
rs7942420	0.93[EUR][1000 genomes]
rs7947588	0.94[EUR][1000 genomes]
rs7947666	0.89[YRI][hapmap]
rs7950140	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[EUR][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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv1039636	chr11:10126747-10280570	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1036041	chr11:10131018-10212202	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv975150	chr11:10174580-10182242	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7928170	RP11-351I24.1	cis	Whole Blood	GTEx

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10170600-10189000	Weak transcription	Left Ventricle	heart
2	chr11:10176200-10184000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr11:10177800-10183200	Weak transcription	Ovary	ovary
4	chr11:10177800-10183800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr11:10178000-10182200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr11:10178000-10182200	Weak transcription	HMEC	breast
7	chr11:10178000-10183600	Weak transcription	Right Ventricle	heart
8	chr11:10178200-10180000	Weak transcription	Hela-S3	cervix
9	chr11:10178200-10180400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:10178200-10180400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr11:10178200-10182200	Weak transcription	NHLF	lung
12	chr11:10178200-10182400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr11:10178200-10185400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr11:10178200-10213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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