Variant report

Variant	rs10761174
Chromosome Location	chr9:95618766-95618767
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10124671	0.91[CHB][hapmap];0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1040978	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10733745	0.88[EUR][1000 genomes]
rs10739930	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10739931	0.83[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10739935	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10821019	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13301210	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2057457	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4110696	0.84[EUR][1000 genomes]
rs4465027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744153	0.92[CEU][hapmap];0.81[GIH][hapmap];0.83[MEX][hapmap];0.86[EUR][1000 genomes]
rs6479432	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479433	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7038387	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7040331	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7860417	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7868874	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7875611	0.80[EUR][1000 genomes]
rs965654	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10761174	ZNF484	cis	cerebellum	SCAN
rs10761174	ZNF484	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95605000-95624200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:95606800-95619600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr9:95609000-95639800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:95610800-95619800	Strong transcription	Rectal Mucosa Donor 31	rectum
5	chr9:95611000-95619800	Strong transcription	Primary T helper cells PMA-I stimulated	--
6	chr9:95611000-95620000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:95611000-95620000	Strong transcription	Rectal Mucosa Donor 29	rectum
8	chr9:95611200-95620600	Strong transcription	Left Ventricle	heart
9	chr9:95611200-95632800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:95611600-95619800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr9:95611600-95620000	Strong transcription	Osteobl	bone
12	chr9:95612400-95618800	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr9:95612400-95622000	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr9:95612400-95622200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:95612400-95624200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr9:95612600-95620200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:95612600-95620400	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr9:95612600-95620400	Strong transcription	Fetal Muscle Leg	muscle
19	chr9:95613200-95620400	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr9:95613400-95619600	Strong transcription	HUES6 Cell Line	embryonic stem cell
21	chr9:95613400-95619800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr9:95613400-95620000	Strong transcription	Primary B cells from peripheral blood	blood
23	chr9:95613400-95621600	Weak transcription	HMEC	breast
24	chr9:95613800-95618800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr9:95614000-95624200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr9:95614200-95620400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr9:95614400-95620400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr9:95615000-95618800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr9:95615000-95618800	Strong transcription	Duodenum Mucosa	Duodenum
30	chr9:95615000-95618800	Strong transcription	Sigmoid Colon	Sigmoid Colon
31	chr9:95615000-95618800	Strong transcription	HUVEC	blood vessel
32	chr9:95615000-95619400	Strong transcription	Ovary	ovary
33	chr9:95615000-95619800	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr9:95615000-95620000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr9:95615000-95620600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr9:95615200-95618800	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr9:95615200-95619800	Strong transcription	HepG2	liver
38	chr9:95615200-95620200	Strong transcription	Primary T cells from cord blood	blood
39	chr9:95615200-95620600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr9:95615400-95619600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr9:95615400-95619800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr9:95615400-95620000	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr9:95615400-95620400	Strong transcription	Fetal Muscle Trunk	muscle
44	chr9:95615600-95619200	Strong transcription	Fetal Brain Female	brain
45	chr9:95615600-95619800	Strong transcription	Lung	lung
46	chr9:95615600-95620400	Strong transcription	Fetal Intestine Large	intestine
47	chr9:95616000-95619400	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr9:95616200-95619400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr9:95616200-95620400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr9:95616200-95620800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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