Variant report

Variant	rs9875972
Chromosome Location	chr3:105134851-105134852
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs16851209	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2033803	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28444183	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772558	0.85[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap]
rs59857604	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6437585	0.83[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.93[MKK][hapmap];0.92[TSI][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6437586	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618632	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.96[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7633625	0.81[ASN][1000 genomes]
rs7640337	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7650270	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7651616	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7651901	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9815659	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9846962	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9848760	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs9879039	0.81[ASN][1000 genomes]
rs9879710	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised 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	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105121600-105136600	Weak transcription	HSMM	muscle
2	chr3:105122400-105136600	Weak transcription	Osteobl	bone
3	chr3:105122600-105135800	Weak transcription	NHEK	skin
4	chr3:105123800-105135800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:105128800-105136600	Weak transcription	HMEC	breast
6	chr3:105133000-105135000	Enhancers	Brain Anterior Caudate	brain
7	chr3:105133200-105135000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr3:105133200-105135000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr3:105133400-105135600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr3:105133600-105135200	Enhancers	NH-A	brain
11	chr3:105133800-105135000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr3:105133800-105135000	Enhancers	Brain Substantia Nigra	brain
13	chr3:105134000-105135000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:105134000-105135000	Weak transcription	HUVEC	blood vessel
15	chr3:105134000-105135400	Enhancers	A549	lung
16	chr3:105134400-105135000	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr3:105134400-105136800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr3:105134400-105136800	Weak transcription	Brain Hippocampus Middle	brain
19	chr3:105134400-105141400	Weak transcription	Brain Cingulate Gyrus	brain
20	chr3:105134400-105145400	Weak transcription	Brain Angular Gyrus	brain
21	chr3:105134800-105135000	Enhancers	Small Intestine	intestine
22	chr3:105134800-105135200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:105134800-105135200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:105134800-105135200	Enhancers	NHLF	lung

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