Variant report

Variant	rs1779227
Chromosome Location	chr10:18473271-18473272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12413195	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs12777936	0.83[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16916928	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.89[MEX][hapmap];0.91[MKK][hapmap];0.90[TSI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1757205	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1757206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1757207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1757210	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1757211	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1779226	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1779228	0.86[CHB][hapmap];0.83[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1779235	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779237	0.83[LWK][hapmap]
rs1779238	0.86[CEU][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779240	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7067916	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1779227	NSUN6	cis	Artery Tibial	GTEx
rs1779227	PTPLA	cis	cerebellum	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18468400-18486000	Weak transcription	Fetal Intestine Large	intestine
2	chr10:18469000-18486000	Weak transcription	Aorta	Aorta
3	chr10:18469200-18486000	Weak transcription	Fetal Intestine Small	intestine
4	chr10:18469400-18474400	Weak transcription	Brain Angular Gyrus	brain
5	chr10:18469400-18479000	Weak transcription	Right Ventricle	heart
6	chr10:18469400-18491200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr10:18469600-18473600	Weak transcription	Pancreas	Pancrea
8	chr10:18469600-18474600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr10:18469600-18474800	Weak transcription	Brain Substantia Nigra	brain
10	chr10:18469600-18483200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:18469600-18486000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr10:18469800-18479200	Weak transcription	Left Ventricle	heart
13	chr10:18470200-18473400	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr10:18470200-18484000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr10:18470200-18484400	Weak transcription	Right Atrium	heart
16	chr10:18470400-18474400	Weak transcription	Fetal Heart	heart
17	chr10:18471000-18474000	Weak transcription	Colon Smooth Muscle	Colon
18	chr10:18471200-18473600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr10:18471200-18473600	Weak transcription	Ovary	ovary
20	chr10:18471200-18473800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr10:18471200-18483000	Weak transcription	Fetal Stomach	stomach
22	chr10:18471400-18483600	Weak transcription	Fetal Lung	lung
23	chr10:18471600-18481000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr10:18472800-18473600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr10:18473200-18475000	Enhancers	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links