Variant report

Variant	rs561826
Chromosome Location	chr6:133821064-133821065
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10872407	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs212765	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs212766	0.84[CEU][hapmap]
rs212771	0.88[EUR][1000 genomes]
rs212773	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs212774	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs212775	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs212776	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs212777	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2277083	1.00[CEU][hapmap];0.81[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822939	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.82[TSI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs478907	1.00[CHB][hapmap];0.96[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs598286	0.89[EUR][1000 genomes]
rs598699	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs667890	0.83[EUR][1000 genomes]
rs667955	0.88[EUR][1000 genomes]
rs6899927	0.82[JPT][hapmap]
rs6913726	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385650	0.94[ASN][1000 genomes]
rs9483586	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs561826	VNN3	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133765800-133822000	Weak transcription	Psoas Muscle	Psoas
2	chr6:133787400-133822800	Weak transcription	Fetal Lung	lung
3	chr6:133790800-133821600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:133808600-133822000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr6:133810200-133821400	Weak transcription	Hela-S3	cervix
6	chr6:133818400-133828400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:133819200-133822000	Weak transcription	Fetal Kidney	kidney
8	chr6:133819800-133824000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:133820400-133821800	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:133820400-133822000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:133820600-133823600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:133820800-133824200	Enhancers	Fetal Muscle Leg	muscle
13	chr6:133821000-133821400	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links