Variant report

Variant	rs28550674
Chromosome Location	chr4:96680499-96680500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:96674646..96677370-chr4:96678560..96681527,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10049688	1.00[EUR][1000 genomes]
rs11930626	1.00[EUR][1000 genomes]
rs11942941	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1436561	1.00[EUR][1000 genomes]
rs1836903	1.00[EUR][1000 genomes]
rs1836904	1.00[EUR][1000 genomes]
rs1836905	1.00[EUR][1000 genomes]
rs28802131	1.00[EUR][1000 genomes]
rs58709319	1.00[EUR][1000 genomes]
rs60331700	1.00[EUR][1000 genomes]
rs61008276	1.00[EUR][1000 genomes]
rs61695477	1.00[EUR][1000 genomes]
rs6532573	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6812551	1.00[EUR][1000 genomes]
rs6829403	1.00[EUR][1000 genomes]
rs6829785	1.00[EUR][1000 genomes]
rs6837915	1.00[EUR][1000 genomes]
rs6845293	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72884090	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72884091	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72884101	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72885624	1.00[EUR][1000 genomes]
rs72885625	1.00[EUR][1000 genomes]
rs72885702	1.00[EUR][1000 genomes]
rs72887505	1.00[EUR][1000 genomes]
rs72887506	1.00[EUR][1000 genomes]
rs72887509	1.00[EUR][1000 genomes]
rs72887510	1.00[EUR][1000 genomes]
rs72887518	1.00[EUR][1000 genomes]
rs72887519	1.00[EUR][1000 genomes]
rs72887522	1.00[EUR][1000 genomes]
rs72887550	1.00[EUR][1000 genomes]
rs72887576	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72887578	1.00[EUR][1000 genomes]
rs73839620	1.00[EUR][1000 genomes]
rs7441925	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7656306	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7661333	1.00[EUR][1000 genomes]
rs7680705	1.00[EUR][1000 genomes]
rs7681050	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7681350	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7686142	1.00[EUR][1000 genomes]
rs7686287	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7695350	1.00[EUR][1000 genomes]
rs9942151	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830012	chr4:96547783-96746163	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1844506	chr4:96554889-96704333	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv997304	chr4:96575198-96861349	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1010830	chr4:96607025-96862878	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv537191	chr4:96607025-96862878	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv594915	chr4:96628653-97086618	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv428767	chr4:96676384-96831793	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96665800-96682200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr4:96666600-96682800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:96677800-96682200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr4:96678800-96680600	Enhancers	HUVEC	blood vessel
5	chr4:96679000-96681800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr4:96679800-96681800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr4:96680000-96681400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr4:96680000-96681800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr4:96680000-96681800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:96680000-96682000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr4:96680200-96681200	Weak transcription	Brain Hippocampus Middle	brain
12	chr4:96680200-96681400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr4:96680200-96681400	Weak transcription	HUES6 Cell Line	embryonic stem cell

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