Variant report

Variant	rs6825532
Chromosome Location	chr4:88335887-88335888
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	chr4:88335741..88338159-chr4:88341487..88345054,3	MCF-7	breast:
2	chr4:88331501..88333304-chr4:88334712..88337040,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170502	Chromatin interaction
ENSG00000249262	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11932891	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11932933	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11935226	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11936273	0.92[ASW][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11937770	0.85[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11940597	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs56189054	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56253808	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58555412	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60350615	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60465726	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60622737	0.88[AFR][1000 genomes]
rs6826257	1.00[ASW][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6828094	1.00[MEX][hapmap]
rs6828253	1.00[MEX][hapmap]
rs6833270	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6833835	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6838776	0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6839314	0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6840298	1.00[MEX][hapmap]
rs72877349	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72877357	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72877358	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7678047	1.00[MEX][hapmap]

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	nsv1004518	chr4:88218473-88354403	Weak transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv1002789	chr4:88239340-88606485	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:88329600-88342600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:88331800-88336600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:88331800-88340400	Weak transcription	Stomach Mucosa	stomach
4	chr4:88332000-88336400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr4:88332400-88337000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr4:88332400-88339400	Weak transcription	Fetal Intestine Large	intestine
7	chr4:88334600-88342800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:88335600-88337400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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