Variant report

Variant	rs6083036
Chromosome Location	chr20:23181834-23181835
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr20:23038451..23039596-chr20:23181254..23182191,4	MCF-7	breast:
2	chr20:23122546..23124571-chr20:23180527..23183160,2	MCF-7	breast:
3	chr20:23181615..23184687-chr20:23185020..23187580,3	K562	blood:
4	chr20:23002066..23002869-chr20:23181325..23182243,3	MCF-7	breast:
5	chr20:23128719..23130340-chr20:23179847..23182584,2	K562	blood:
6	chr20:23181724..23187567-chr20:23190860..23194115,6	MCF-7	breast:
7	chr20:22672036..22672960-chr20:23181325..23182023,4	MCF-7	breast:
8	chr20:23066160..23068194-chr20:23180754..23182978,2	K562	blood:
9	chr20:22670744..22673575-chr20:23180710..23182466,2	MCF-7	breast:
10	chr20:23031492..23032347-chr20:23180782..23182215,4	K562	blood:
11	chr20:23180909..23182813-chr20:23193435..23195375,2	MCF-7	breast:
12	chr20:23031273..23031851-chr20:23181325..23181849,2	MCF-7	breast:
13	chr20:23180782..23182510-chr20:23188143..23190298,2	MCF-7	breast:
14	chr20:23031208..23032750-chr20:23180279..23182634,2	MCF-7	breast:
15	chr20:23167086..23169552-chr20:23181664..23183709,2	K562	blood:
16	chr20:22672377..22672995-chr20:23181234..23182214,2	K562	blood:
17	chr20:23031208..23032065-chr20:23181288..23182112,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230387	Chromatin interaction
ENSG00000125810	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1005856	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1099456	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11696272	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1338942	0.99[ASN][1000 genomes]
rs1338944	0.89[ASN][1000 genomes]
rs1416399	0.88[ASN][1000 genomes]
rs1538445	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1538446	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1572707	0.87[ASN][1000 genomes]
rs1856470	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2024897	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6036338	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6048590	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6048591	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6048592	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6048595	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6048612	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6048615	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6048618	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6048619	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6076038	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6076039	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6076041	0.89[ASN][1000 genomes]
rs6083030	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6083032	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6083033	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083038	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6083042	0.96[ASN][1000 genomes]
rs6083043	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6106616	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6113992	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6132576	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6132577	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6132578	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6132579	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62206882	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62206883	0.83[AMR][1000 genomes]
rs750652	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8118328	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs844924	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs844929	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs844930	0.98[ASN][1000 genomes]
rs844932	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844934	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs844935	0.83[AMR][1000 genomes]
rs844936	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844937	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844938	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844939	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844940	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs844941	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs844942	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs867909	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs870225	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv912817	chr20:23127661-23240969	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1066734	chr20:23170094-23277628	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23178800-23182600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr20:23179200-23183600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr20:23179400-23183600	Weak transcription	NHDF-Ad	bronchial
4	chr20:23180200-23182200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr20:23180400-23182600	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr20:23180800-23184800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr20:23181200-23182000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr20:23181200-23182000	Enhancers	Lung	lung
9	chr20:23181200-23182200	Enhancers	Placenta	Placenta
10	chr20:23181200-23182600	Enhancers	Left Ventricle	heart
11	chr20:23181200-23183800	Enhancers	Right Ventricle	heart
12	chr20:23181400-23182200	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr20:23181400-23182600	Enhancers	K562	blood
14	chr20:23181600-23182000	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr20:23181600-23183400	Weak transcription	Right Atrium	heart
16	chr20:23181800-23182200	Enhancers	Stomach Mucosa	stomach
17	chr20:23181800-23182200	Enhancers	HMEC	breast
18	chr20:23181800-23184400	Enhancers	Fetal Muscle Leg	muscle
19	chr20:23181800-23185000	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links