Variant report

Variant	rs6959645
Chromosome Location	chr7:11627298-11627299
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10275517	0.89[JPT][hapmap]
rs10950355	0.90[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.90[ASN][1000 genomes]
rs15	0.90[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs20	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs2189636	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2189640	0.85[ASN][1000 genomes]
rs2214588	0.90[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs2354963	0.84[CHB][hapmap];0.89[JPT][hapmap]
rs31	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs33	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs34	0.89[CHB][hapmap];0.88[JPT][hapmap]
rs42	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs43	0.84[CHB][hapmap]
rs44	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs45	0.84[CHB][hapmap]
rs53	1.00[LWK][hapmap]
rs55	0.85[CHB][hapmap]
rs67	0.89[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs68	0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs69	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs6974688	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs70	0.84[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs7456268	0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs7780359	0.85[ASN][1000 genomes]
rs79	0.86[ASN][1000 genomes]
rs80	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs82	0.90[CHB][hapmap];0.88[CHD][hapmap];0.85[ASN][1000 genomes]
rs929301	0.85[ASN][1000 genomes]

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	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
2	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
3	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
4	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
5	nsv606199	chr7:11506143-12486659	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6959645	DGKB	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:11617600-11634000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:11619000-11634400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr7:11619200-11633400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:11623200-11633000	Weak transcription	Placenta	Placenta
5	chr7:11623800-11632800	Weak transcription	Liver	Liver
6	chr7:11624000-11631600	Weak transcription	Fetal Brain Male	brain
7	chr7:11624600-11632000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr7:11625400-11629000	Weak transcription	Fetal Kidney	kidney
9	chr7:11626400-11628000	Enhancers	Fetal Heart	heart
10	chr7:11627200-11630000	Weak transcription	Fetal Lung	lung
11	chr7:11627200-11632800	Weak transcription	A549	lung
12	chr7:11627200-11633000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links