Variant report

Variant	rs7852416
Chromosome Location	chr9:95785755-95785756
allele	A/C
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]
rs10115178	0.85[ASN][1000 genomes]
rs10115813	0.85[ASN][1000 genomes]
rs10117910	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs10821056	1.00[GIH][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10821057	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992583	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992585	0.88[CEU][hapmap];0.82[JPT][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10992590	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992593	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1127857	1.00[CHB][hapmap]
rs11788432	0.86[YRI][hapmap]
rs12005054	1.00[CHB][hapmap]
rs13284731	1.00[CHB][hapmap]
rs13285107	1.00[CHB][hapmap]
rs13285835	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs13287304	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13294417	1.00[CHB][hapmap]
rs13298119	1.00[CHB][hapmap]
rs13299270	1.00[CHB][hapmap]
rs28715500	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34002351	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34274030	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36044170	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56226047	0.90[ASN][1000 genomes]
rs7024692	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs7048701	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7854887	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7855476	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats 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	nsv1054767	chr9:95738134-95875977	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1035230	chr9:95770249-95934982	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats 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	28 gene(s)	inside rSNPs	diseases
4	nsv893575	chr9:95781040-95854013	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv521136	chr9:95782667-95798871	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7852416	ZNF484	cis	parietal	SCAN

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95761600-95785800	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:95761600-95785800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:95762000-95786400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr9:95762600-95790200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:95763600-95787200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr9:95763800-95789400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:95766600-95790400	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr9:95766600-95790800	Weak transcription	Right Ventricle	heart
9	chr9:95766600-95791000	Weak transcription	Colonic Mucosa	Colon
10	chr9:95766600-95791000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:95766600-95794000	Weak transcription	Brain Hippocampus Middle	brain
12	chr9:95766800-95786400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr9:95767000-95787200	Strong transcription	Fetal Thymus	thymus
14	chr9:95770200-95793600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:95773400-95786600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:95774800-95788400	Strong transcription	Thymus	Thymus
17	chr9:95775000-95786600	Strong transcription	Primary B cells from cord blood	blood
18	chr9:95776600-95799200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr9:95776600-95799400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:95778000-95786600	Strong transcription	Spleen	Spleen
21	chr9:95778600-95786400	Weak transcription	Gastric	stomach
22	chr9:95779600-95785800	Strong transcription	Fetal Intestine Large	intestine
23	chr9:95779600-95786600	Strong transcription	Dnd41	blood
24	chr9:95779600-95788800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
25	chr9:95779600-95798400	Strong transcription	Brain Germinal Matrix	brain
26	chr9:95780800-95787800	Strong transcription	Primary hematopoietic stem cells	blood
27	chr9:95781000-95786400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr9:95781000-95786600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr9:95781200-95789400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
30	chr9:95781600-95785800	Strong transcription	Duodenum Mucosa	Duodenum
31	chr9:95781600-95787200	Strong transcription	Fetal Intestine Small	intestine
32	chr9:95781600-95788800	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr9:95781800-95786000	Strong transcription	Pancreas	Pancrea
34	chr9:95781800-95786600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr9:95781800-95789200	Strong transcription	Lung	lung
36	chr9:95781800-95789600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr9:95781800-95790400	Genic enhancers	Primary T cells fromperipheralblood	blood
38	chr9:95782000-95789600	Genic enhancers	Primary T cells from cord blood	blood
39	chr9:95782200-95790000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
40	chr9:95783000-95793800	Weak transcription	Liver	Liver
41	chr9:95783400-95787600	Weak transcription	Fetal Stomach	stomach
42	chr9:95783600-95786400	Weak transcription	Fetal Muscle Leg	muscle
43	chr9:95783600-95790800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr9:95783600-95799000	Weak transcription	Esophagus	oesophagus
45	chr9:95783800-95787200	Weak transcription	Placenta	Placenta
46	chr9:95784000-95786400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr9:95784000-95786400	Weak transcription	Brain Anterior Caudate	brain
48	chr9:95784200-95795400	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr9:95784400-95786000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr9:95784600-95786600	Weak transcription	Adipose Nuclei	Adipose

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