Variant report

Variant	rs6858216
Chromosome Location	chr4:57738598-57738599
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	chr4:57734226..57738825-chr4:57772545..57776428,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000084093	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10008356	0.83[ASN][1000 genomes]
rs10030913	0.88[ASN][1000 genomes]
rs10866440	0.88[ASN][1000 genomes]
rs1105434	0.81[ASN][1000 genomes]
rs11730321	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730476	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730525	0.90[ASN][1000 genomes]
rs11734953	0.88[ASN][1000 genomes]
rs11736869	0.81[ASN][1000 genomes]
rs11933908	0.90[ASN][1000 genomes]
rs12500454	0.81[ASN][1000 genomes]
rs12501990	0.81[ASN][1000 genomes]
rs13108245	0.88[ASN][1000 genomes]
rs13113802	0.89[ASN][1000 genomes]
rs13116564	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13146960	0.87[ASN][1000 genomes]
rs13149162	0.89[ASN][1000 genomes]
rs13353552	0.87[ASN][1000 genomes]
rs1877669	0.90[ASN][1000 genomes]
rs2002153	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2090962	0.93[ASN][1000 genomes]
rs2412761	0.80[EUR][1000 genomes]
rs3000	0.90[ASN][1000 genomes]
rs3806745	0.80[ASN][1000 genomes]
rs4276341	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4413466	0.95[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs4443350	0.80[EUR][1000 genomes]
rs4864606	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4864607	0.89[ASN][1000 genomes]
rs4864608	0.81[ASN][1000 genomes]
rs4865156	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4865157	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4865158	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4865159	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4865160	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs55822707	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs56122758	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62308110	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62308111	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62308135	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs62308136	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs62308137	0.89[ASN][1000 genomes]
rs6554393	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6554394	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6554397	0.90[ASN][1000 genomes]
rs6554398	0.88[ASN][1000 genomes]
rs6816950	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6835102	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6835108	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6838948	0.90[ASN][1000 genomes]
rs6839166	0.80[EUR][1000 genomes]
rs6839845	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6840805	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6852110	0.81[ASN][1000 genomes]
rs6854420	0.90[ASN][1000 genomes]
rs6855212	0.93[ASN][1000 genomes]
rs6857005	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6857226	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs729844	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73242609	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7666804	0.93[ASN][1000 genomes]
rs7667302	0.93[ASN][1000 genomes]
rs7680734	0.81[ASN][1000 genomes]
rs7695970	0.90[ASN][1000 genomes]
rs899632	0.93[ASN][1000 genomes]
rs9684742	0.87[AMR][1000 genomes];0.93[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:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57727800-57740600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:57737200-57738600	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr4:57737200-57739000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr4:57737200-57740800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:57738000-57739000	Enhancers	Fetal Muscle Leg	muscle
6	chr4:57738000-57740400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:57738000-57740600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr4:57738000-57740600	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr4:57738000-57740600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr4:57738000-57740600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr4:57738000-57741400	Weak transcription	GM12878-XiMat	blood
12	chr4:57738000-57742800	Weak transcription	Spleen	Spleen
13	chr4:57738000-57744200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr4:57738200-57738600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr4:57738200-57738600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr4:57738200-57738600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr4:57738200-57739000	Enhancers	Fetal Muscle Trunk	muscle
18	chr4:57738200-57739200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr4:57738200-57740400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr4:57738200-57740600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr4:57738200-57740600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr4:57738200-57746400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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