Variant report

Variant	rs1203946
Chromosome Location	chr20:22600978-22600979
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	chr20:22590072..22592802-chr20:22598328..22601056,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1007202	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1007458	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1146365	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1203920	0.96[EUR][1000 genomes]
rs1203921	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203925	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203927	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1203928	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203929	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203931	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203934	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1203935	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1203936	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1203937	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203938	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203939	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203940	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203941	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203942	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203943	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1203944	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203945	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203947	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203948	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1203949	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1203950	0.96[EUR][1000 genomes]
rs1884742	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2180553	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2224316	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2424436	1.00[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2424442	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2424443	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2424444	0.86[EUR][1000 genomes]
rs6075931	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6082762	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082765	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6137712	0.86[EUR][1000 genomes]
rs747911	0.86[EUR][1000 genomes]
rs747912	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs754855	0.85[EUR][1000 genomes]
rs910956	0.86[EUR][1000 genomes]
rs910957	0.83[EUR][1000 genomes]
rs910960	0.84[EUR][1000 genomes]
rs995734	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	nsv428690	chr20:22528757-22649625	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22595000-22601800	Enhancers	Stomach Mucosa	stomach
2	chr20:22598200-22603600	Weak transcription	Spleen	Spleen
3	chr20:22599000-22601800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr20:22599600-22602000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
5	chr20:22600000-22601000	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr20:22600000-22601000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr20:22600000-22601200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr20:22600000-22601600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr20:22600200-22601000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr20:22600200-22601200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr20:22600200-22601600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr20:22600200-22601600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr20:22600200-22601800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr20:22600600-22601000	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
15	chr20:22600600-22601200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
16	chr20:22600600-22601400	Enhancers	H9 Cell Line	embryonic stem cell
17	chr20:22600600-22601400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
18	chr20:22600800-22601000	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
19	chr20:22600800-22601000	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
20	chr20:22600800-22601400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr20:22600800-22602000	Bivalent Enhancer	HepG2	liver

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