Variant report

Variant	rs56162812
Chromosome Location	chr4:57740667-57740668
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	chr4:57740477..57743269-chr4:57772989..57775618,2	MCF-7	breast:
2	chr4:57739739..57741859-chr4:57787716..57790599,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000084093	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10017024	0.81[ASN][1000 genomes]
rs10024730	0.82[ASN][1000 genomes]
rs10026372	0.81[ASN][1000 genomes]
rs12645070	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12648788	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13150434	0.81[ASN][1000 genomes]
rs2002154	0.81[ASN][1000 genomes]
rs2170073	0.81[ASN][1000 genomes]
rs2170074	0.82[ASN][1000 genomes]
rs4339274	0.82[ASN][1000 genomes]
rs4371672	0.81[ASN][1000 genomes]
rs4412049	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4566710	0.81[ASN][1000 genomes]
rs4616820	0.81[ASN][1000 genomes]
rs55762216	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs56281640	0.83[ASN][1000 genomes]
rs58408429	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs58548607	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59708338	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59713092	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60796028	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62308104	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66790703	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs67043033	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6853156	0.83[AMR][1000 genomes]
rs704637	0.91[ASN][1000 genomes]
rs73165958	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73165962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73165963	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73165969	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7658601	0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7665147	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7670313	0.82[ASN][1000 genomes]
rs781561	0.83[ASN][1000 genomes]
rs781656	0.84[AMR][1000 genomes]
rs781657	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs781658	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs781663	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv1012287	chr4:57652778-57853485	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv1012125	chr4:57668229-57865803	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv822561	chr4:57736121-57747867	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	3 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	chr4:57737200-57740800	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr4:57738000-57741400	Weak transcription	GM12878-XiMat	blood
3	chr4:57738000-57742800	Weak transcription	Spleen	Spleen
4	chr4:57738000-57744200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr4:57738200-57746400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr4:57739200-57741200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:57740400-57741400	Enhancers	H1 Cell Line	embryonic stem cell
8	chr4:57740400-57741400	Enhancers	H9 Cell Line	embryonic stem cell
9	chr4:57740400-57741400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:57740600-57740800	Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr4:57740600-57740800	Active TSS	HUES64 Cell Line	embryonic stem cell
12	chr4:57740600-57740800	Active TSS	iPS-20b Cell Line	embryonic stem cell
13	chr4:57740600-57740800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:57740600-57741000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr4:57740600-57741000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr4:57740600-57741000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:57740600-57741200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr4:57740600-57741200	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr4:57740600-57741200	Active TSS	Rectal Mucosa Donor 31	rectum
20	chr4:57740600-57741400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
21	chr4:57740600-57741400	Active TSS	ES-WA7 Cell Line	embryonic stem cell

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