Variant report

Variant	rs9516902
Chromosome Location	chr13:97961427-97961428
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:97954626..97957097-chr13:97959109..97962404,3	K562	blood:
2	chr13:97957571..97959478-chr13:97960414..97962646,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1316549	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463790	0.91[JPT][hapmap];0.84[AMR][1000 genomes]
rs1553013	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1973419	0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1974086	0.84[CHD][hapmap]
rs2011452	0.85[AMR][1000 genomes]
rs2291785	0.88[AMR][1000 genomes]
rs3782983	0.89[ASW][hapmap]
rs4771270	0.89[ASW][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes]
rs4771991	0.81[CHD][hapmap]
rs61974439	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6491350	0.89[ASW][hapmap]
rs7320865	0.82[CEU][hapmap];0.84[GIH][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7338689	0.91[JPT][hapmap];0.87[AMR][1000 genomes]
rs7995199	0.85[AMR][1000 genomes]
rs949741	0.81[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9513235	0.85[AMR][1000 genomes]
rs9513237	0.85[AMR][1000 genomes]
rs9516904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516907	0.85[AMR][1000 genomes]
rs9556702	0.86[JPT][hapmap];0.80[TSI][hapmap];0.88[AMR][1000 genomes]
rs9556706	0.85[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9516902	GPR18	cis	cerebellum	SCAN

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97925800-97987200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr13:97933200-97970400	Weak transcription	Placenta	Placenta
3	chr13:97942800-97995200	Weak transcription	Thymus	Thymus
4	chr13:97948600-97971600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr13:97950000-97971200	Weak transcription	Stomach Mucosa	stomach
6	chr13:97950200-97965200	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr13:97950800-97965200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr13:97951200-97962600	Enhancers	Brain Hippocampus Middle	brain
9	chr13:97954400-97986200	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr13:97955000-97964000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr13:97955000-97987000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr13:97955200-97965600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr13:97955200-97968200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr13:97955200-97970400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr13:97955200-97986800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr13:97955400-97971400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr13:97955800-97965800	Weak transcription	Lung	lung
18	chr13:97956400-97961600	Enhancers	Liver	Liver
19	chr13:97957600-97962400	Enhancers	Brain Angular Gyrus	brain
20	chr13:97957800-97961800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr13:97957800-97962400	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr13:97958000-97962000	Enhancers	HUVEC	blood vessel
23	chr13:97958000-97962200	Enhancers	NHLF	lung
24	chr13:97958200-97961800	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr13:97958200-97962000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
26	chr13:97958200-97962000	Enhancers	Fetal Muscle Leg	muscle
27	chr13:97958200-97962400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr13:97958200-97962400	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr13:97958400-97961600	Enhancers	Muscle Satellite Cultured Cells	--
30	chr13:97958400-97961600	Enhancers	Adipose Nuclei	Adipose
31	chr13:97958400-97961600	Enhancers	Colon Smooth Muscle	Colon
32	chr13:97958400-97962600	Enhancers	Brain Substantia Nigra	brain
33	chr13:97958600-97961600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr13:97959000-97967800	Weak transcription	Esophagus	oesophagus
35	chr13:97959000-97970400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr13:97959000-97971200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr13:97959200-97961600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr13:97959200-97961800	Enhancers	Hela-S3	cervix
39	chr13:97959200-97968000	Weak transcription	Fetal Intestine Small	intestine
40	chr13:97959200-97970400	Weak transcription	Small Intestine	intestine
41	chr13:97959400-97988800	Weak transcription	Fetal Intestine Large	intestine
42	chr13:97959800-97961800	Enhancers	Psoas Muscle	Psoas
43	chr13:97959800-97962000	Enhancers	Ovary	ovary
44	chr13:97959800-97962600	Strong transcription	Primary B cells from cord blood	blood
45	chr13:97959800-97964200	Enhancers	Left Ventricle	heart
46	chr13:97960000-97961600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr13:97960000-97961600	Flanking Active TSS	NH-A	brain
48	chr13:97960000-97961800	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr13:97960000-97961800	Enhancers	Fetal Kidney	kidney
50	chr13:97960000-97963000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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