Variant report

Variant	rs16952186
Chromosome Location	chr15:40025225-40025226
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40018915..40020928-chr15:40023439..40025261,2	MCF-7	breast:
2	chr15:40013365..40015797-chr15:40023109..40026262,4	K562	blood:
3	chr15:40025203..40027803-chr15:40038050..40039885,2	K562	blood:

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11858148	0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs12437837	0.81[ASN][1000 genomes]
rs12440567	0.85[CHD][hapmap]
rs16969621	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16969789	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1906166	0.83[ASN][1000 genomes]
rs4923838	0.93[CHB][hapmap];0.89[CHD][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs4924379	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4924380	1.00[CHB][hapmap]
rs4924381	0.84[AMR][1000 genomes]
rs4924383	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924387	0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs59180773	0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs59434895	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs60431166	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs61620785	0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs61695850	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7173020	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72727050	0.89[ASN][1000 genomes]
rs8024166	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8028533	1.00[ASW][hapmap];0.87[LWK][hapmap]
rs8032864	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs8034520	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs8034550	1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs8035291	0.92[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8035986	0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs8043488	0.85[YRI][hapmap]
rs951374	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40021800-40038000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:40023200-40027000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:40023400-40028200	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr15:40023400-40028400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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