Variant report

Variant	rs10224183
Chromosome Location	chr7:11499734-11499735
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10224154	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10950347	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs11979605	0.92[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs12055997	0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs17164600	0.90[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs2107156	0.81[EUR][1000 genomes]
rs2189351	0.92[CHB][hapmap];0.82[JPT][hapmap]
rs2301743	1.00[CHB][hapmap]
rs2354373	0.82[CHB][hapmap]
rs40244	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs4351330	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs6460812	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6460814	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6962687	0.92[CHB][hapmap]
rs73284705	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73284709	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73284711	0.93[ASN][1000 genomes]
rs757234	1.00[CEU][hapmap];0.85[GIH][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes]
rs7777246	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs7792678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7794215	0.91[CEU][hapmap]
rs7796686	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7803385	0.90[CHB][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs7807165	0.81[ASN][1000 genomes]
rs7807369	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7811128	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs7811849	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1024171	chr7:10810444-11559156	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv817291	chr7:10875417-11562683	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1028326	chr7:11221209-11754436	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv538733	chr7:11221209-11754436	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv830902	chr7:11336527-11523904	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv830903	chr7:11384957-11586376	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1023665	chr7:11457493-11773517	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv887606	chr7:11473561-11771288	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10224183	THSD7A	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:11464800-11513400	Weak transcription	Fetal Kidney	kidney
2	chr7:11468800-11500200	Weak transcription	Pancreas	Pancrea
3	chr7:11480400-11523200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr7:11487200-11500000	Weak transcription	Placenta	Placenta
5	chr7:11490800-11515800	Weak transcription	Fetal Stomach	stomach
6	chr7:11496600-11500400	Enhancers	Hela-S3	cervix
7	chr7:11498600-11499800	Weak transcription	Fetal Lung	lung
8	chr7:11498600-11501200	Weak transcription	Fetal Intestine Small	intestine
9	chr7:11498600-11519800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr7:11498800-11506200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:11499200-11501400	Weak transcription	A549	lung
12	chr7:11499200-11501600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr7:11499200-11506000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:11499200-11513400	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr7:11499200-11513400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr7:11499400-11499800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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