Variant report

Variant	rs4813228
Chromosome Location	chr20:16600072-16600073
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16593627..16595980-chr20:16599044..16601255,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1105853	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2207205	0.97[EUR][1000 genomes]
rs2328049	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4813229	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4813230	0.86[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	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6034552	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6034554	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6044161	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6044162	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6044169	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6044170	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6044171	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6044173	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6044174	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6075081	0.97[EUR][1000 genomes]
rs6080312	1.00[CEU][hapmap];0.82[CHB][hapmap];0.97[EUR][1000 genomes]
rs6080315	0.97[EUR][1000 genomes]
rs6080317	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6080320	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6080330	0.99[EUR][1000 genomes]
rs6111200	0.97[EUR][1000 genomes]
rs6135809	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs928624	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs945239	0.96[EUR][1000 genomes]
rs945240	0.97[EUR][1000 genomes];0.86[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:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4813228	C20orf23	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16590000-16602400	Weak transcription	Right Atrium	heart
2	chr20:16596600-16600200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr20:16597000-16600800	Weak transcription	Small Intestine	intestine
4	chr20:16598400-16605600	Weak transcription	Fetal Lung	lung
5	chr20:16598600-16600200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr20:16598600-16600200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr20:16600000-16601200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr20:16600000-16602000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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