Variant report

Variant	rs16841872
Chromosome Location	chr3:99720029-99720030
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99708217..99709816-chr3:99718365..99721213,2	MCF-7	breast:
2	chr3:99719980..99722131-chr3:99722963..99725848,2	K562	blood:
3	chr3:99594649..99596564-chr3:99719153..99720665,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168386	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs13320602	1.00[AFR][1000 genomes]
rs28412784	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv869848	chr3:99652246-99904276	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv932634	chr3:99660690-99888854	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010579	chr3:99660754-99901817	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1008483	chr3:99660754-99903769	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010897	chr3:99660754-99904783	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1001529	chr3:99661758-99892654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
9	nsv536665	chr3:99661758-99892654	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
10	nsv999332	chr3:99690207-99774720	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99708400-99724600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:99713600-99787800	Weak transcription	Primary T cells from cord blood	blood
3	chr3:99714000-99720600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:99714600-99724400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:99714800-99720800	Weak transcription	Fetal Intestine Small	intestine
6	chr3:99714800-99724600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:99715800-99724200	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:99716400-99758800	Weak transcription	Primary B cells from cord blood	blood
9	chr3:99716800-99721400	Weak transcription	HUVEC	blood vessel
10	chr3:99717000-99720800	Weak transcription	NH-A	brain
11	chr3:99718200-99720600	Weak transcription	Psoas Muscle	Psoas
12	chr3:99718200-99723000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:99718600-99720400	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr3:99718600-99721200	Weak transcription	NHDF-Ad	bronchial
15	chr3:99718800-99720600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:99718800-99721400	Weak transcription	Osteobl	bone
17	chr3:99719000-99721200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:99719000-99721400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:99719200-99720200	Enhancers	NHEK	skin
20	chr3:99719200-99723200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:99719400-99721200	Weak transcription	HepG2	liver
22	chr3:99719400-99721800	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr3:99719800-99721000	Enhancers	Placenta Amnion	Placenta Amnion
24	chr3:99719800-99723000	Enhancers	HMEC	breast
25	chr3:99720000-99720200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

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