Variant report

Variant	rs7910506
Chromosome Location	chr10:18807057-18807058
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 7 )

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

rs_ID	r²[population]
rs1027194	0.86[ASN][1000 genomes]
rs10741086	0.84[YRI][hapmap]
rs10741120	1.00[ASN][1000 genomes]
rs10764584	0.95[CEU][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10764587	0.94[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10828879	0.95[CEU][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10828901	0.92[EUR][1000 genomes]
rs10828906	0.94[CEU][hapmap];1.00[CHD][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10829156	1.00[CHD][hapmap];0.85[MEX][hapmap]
rs11014830	0.93[EUR][1000 genomes]
rs11014852	0.92[EUR][1000 genomes]
rs1917209	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4328135	0.93[EUR][1000 genomes]
rs4338439	0.81[AMR][1000 genomes]
rs4747353	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4748476	0.95[YRI][hapmap];0.83[AFR][1000 genomes]
rs4748479	0.80[AFR][1000 genomes]
rs62636215	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6482516	0.95[CEU][hapmap];1.00[CHD][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes]
rs7079776	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7081271	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs7082235	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7095666	1.00[CHD][hapmap]
rs7100884	0.84[AMR][1000 genomes]
rs7908550	0.84[AMR][1000 genomes]
rs7911922	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7918933	0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7923072	1.00[CHD][hapmap]

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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1042073	chr10:18806900-18838303	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs7910506	VIM	cis	cerebellum	SCAN
rs7910506	PTPLA	cis	cerebellum	SCAN
rs7910506	C10orf113	cis	parietal	SCAN
rs7910506	RPP38	cis	cerebellum	SCAN
rs7910506	NSUN6	cis	multi-tissue	Pritchard
rs7910506	NSUN6	cis	cerebellum	SCAN
rs7910506	NSUN6	cis	parietal	SCAN

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18776200-18809400	Weak transcription	Right Ventricle	heart
2	chr10:18776200-18812200	Weak transcription	Right Atrium	heart
3	chr10:18778600-18818200	Weak transcription	Fetal Intestine Small	intestine
4	chr10:18785400-18808400	Weak transcription	Colon Smooth Muscle	Colon
5	chr10:18787400-18807400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr10:18787400-18808200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr10:18787400-18810200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr10:18788200-18808400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr10:18788200-18809600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr10:18789800-18807800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:18791000-18807200	Weak transcription	Brain Anterior Caudate	brain
12	chr10:18792400-18825400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr10:18794000-18818400	Weak transcription	Fetal Brain Male	brain
14	chr10:18795000-18807200	Weak transcription	Aorta	Aorta
15	chr10:18799800-18825200	Weak transcription	Colonic Mucosa	Colon
16	chr10:18800200-18826800	Weak transcription	Brain Substantia Nigra	brain
17	chr10:18800400-18827000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:18800800-18818800	Weak transcription	Brain Germinal Matrix	brain
19	chr10:18800800-18819400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr10:18801000-18818800	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr10:18801200-18809800	Weak transcription	Brain Angular Gyrus	brain
22	chr10:18802000-18825000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:18802400-18808400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr10:18802400-18809600	Weak transcription	Liver	Liver
25	chr10:18802600-18807800	Weak transcription	Fetal Stomach	stomach
26	chr10:18802600-18809200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr10:18802600-18828000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr10:18802600-18828200	Weak transcription	Lung	lung
29	chr10:18802800-18809400	Weak transcription	Pancreas	Pancrea
30	chr10:18803000-18807400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr10:18803400-18807200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr10:18803600-18807200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr10:18803600-18807200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:18803600-18808600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr10:18803600-18808800	Weak transcription	Fetal Intestine Large	intestine
36	chr10:18803600-18809600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr10:18803600-18810000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr10:18803800-18809600	Weak transcription	Fetal Heart	heart
39	chr10:18804400-18807200	Weak transcription	Ovary	ovary
40	chr10:18804800-18807800	Weak transcription	Fetal Lung	lung
41	chr10:18804800-18808000	Weak transcription	Left Ventricle	heart
42	chr10:18805400-18807200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr10:18806800-18811200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links