Variant report

Variant	rs6034554
Chromosome Location	chr20:16597324-16597325
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16589932..16591784-chr20:16595469..16597980,2	K562	blood:

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1105853	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2207205	0.97[EUR][1000 genomes]
rs2328049	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4813228	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4813229	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4813230	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4814513	0.97[EUR][1000 genomes]
rs4814516	0.97[EUR][1000 genomes]
rs4814517	0.97[EUR][1000 genomes]
rs6034549	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6034552	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6044161	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6044162	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6044169	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6044170	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044171	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6044173	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6044174	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6075081	0.97[EUR][1000 genomes]
rs6080303	0.83[TSI][hapmap]
rs6080312	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs6080315	0.97[EUR][1000 genomes]
rs6080317	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6080320	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6080330	0.99[EUR][1000 genomes]
rs6111200	0.97[EUR][1000 genomes]
rs6135809	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs928624	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs945239	0.97[EUR][1000 genomes]
rs945240	0.97[EUR][1000 genomes];0.89[ASN][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	nsv525956	chr20:16593159-16601519	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6034554	KIF16B	cis	cerebellum	SCAN
rs6034554	C20orf23	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16590000-16602400	Weak transcription	Right Atrium	heart
2	chr20:16592600-16597400	Enhancers	Fetal Lung	lung
3	chr20:16592600-16597600	Enhancers	Fetal Stomach	stomach
4	chr20:16596000-16597400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr20:16596400-16597800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr20:16596600-16600200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr20:16596800-16598000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr20:16596800-16598000	Weak transcription	Duodenum Mucosa	Duodenum
9	chr20:16597000-16600800	Weak transcription	Small Intestine	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links