Variant report

Variant	rs552412
Chromosome Location	chr6:31777077-31777078
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:31762241..31764929-chr6:31776890..31779670,2	MCF-7	breast:
2	chr6:31702718..31704412-chr6:31776913..31779697,2	MCF-7	breast:
3	chr6:31707248..31709508-chr6:31776899..31779251,2	MCF-7	breast:
4	chr6:31742555..31745004-chr6:31773789..31777145,5	MCF-7	breast:
5	chr6:31760815..31765798-chr6:31772413..31777523,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204410	Chromatin interaction
ENSG00000204394	Chromatin interaction
ENSG00000255152	Chromatin interaction
ENSG00000204396	Chromatin interaction
ENSG00000213719	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2021007	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs534892	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs613281	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62395845	0.94[ASN][1000 genomes]
rs9267652	0.94[ASN][1000 genomes]
rs9267656	0.94[ASN][1000 genomes]
rs9267660	0.94[ASN][1000 genomes]
rs9267662	0.94[ASN][1000 genomes]
rs9267663	0.94[ASN][1000 genomes]
rs9267665	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv601609	chr6:31280101-31799786	Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	332 gene(s)	inside rSNPs	diseases
2	nsv601610	chr6:31280101-31960770	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	370 gene(s)	inside rSNPs	diseases
3	nsv601628	chr6:31280327-31990098	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
4	nsv601629	chr6:31280327-31996185	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
5	nsv601630	chr6:31280327-32011317	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
6	nsv601631	chr6:31280327-32017540	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
7	nsv1023939	chr6:31325961-32026747	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
8	nsv538188	chr6:31325961-32026747	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
9	nsv1021747	chr6:31386219-31907266	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	330 gene(s)	inside rSNPs	diseases
10	nsv1033154	chr6:31550614-32009410	Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	326 gene(s)	inside rSNPs	diseases
11	nsv1017945	chr6:31609641-32481240	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
12	esv3428142	chr6:31615800-31881809	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	257 gene(s)	inside rSNPs	diseases
13	nsv884426	chr6:31728102-31800868	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
14	nsv884427	chr6:31728102-31802465	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
15	nsv884428	chr6:31728102-31870326	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
16	nsv884429	chr6:31730356-31837066	Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	155 gene(s)	inside rSNPs	diseases
17	nsv884430	chr6:31731881-31800631	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
18	nsv884432	chr6:31734117-31777687	Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
19	nsv884433	chr6:31737701-31777687	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
20	nsv884437	chr6:31739881-31777687	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
21	nsv884443	chr6:31745518-31777687	Genic enhancers Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31774600-31780600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:31774600-31781400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:31774600-31781600	Weak transcription	Aorta	Aorta
4	chr6:31774800-31778200	Weak transcription	Ovary	ovary
5	chr6:31774800-31780800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:31774800-31781000	Weak transcription	Psoas Muscle	Psoas
7	chr6:31774800-31781200	Weak transcription	Spleen	Spleen
8	chr6:31774800-31781400	Weak transcription	Brain Angular Gyrus	brain
9	chr6:31774800-31781400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:31774800-31781400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:31774800-31781800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:31774800-31781800	Weak transcription	Pancreas	Pancrea
13	chr6:31774800-31782600	Weak transcription	Lung	lung
14	chr6:31774800-31783000	Weak transcription	Gastric	stomach
15	chr6:31775000-31777800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:31775000-31777800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:31775000-31778400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr6:31775000-31780600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:31775000-31780600	Weak transcription	HMEC	breast
20	chr6:31775000-31781200	Weak transcription	HSMMtube	muscle
21	chr6:31775000-31781400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr6:31775000-31781600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr6:31775000-31781600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr6:31775000-31781600	Weak transcription	Colonic Mucosa	Colon
25	chr6:31775000-31781600	Weak transcription	Right Atrium	heart
26	chr6:31775200-31777200	Enhancers	Liver	Liver
27	chr6:31775200-31777400	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr6:31775200-31777400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr6:31775200-31777400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr6:31775200-31777600	Weak transcription	Primary T cells from cord blood	blood
31	chr6:31775200-31777600	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:31775200-31777600	Enhancers	HepG2	liver
33	chr6:31775200-31777800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr6:31775200-31778000	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:31775200-31778200	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr6:31775200-31779400	Weak transcription	GM12878-XiMat	blood
37	chr6:31775200-31780200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:31775200-31780600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:31775200-31781000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:31775200-31781000	Weak transcription	Fetal Muscle Trunk	muscle
41	chr6:31775200-31781000	Weak transcription	Stomach Mucosa	stomach
42	chr6:31775200-31781200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr6:31775200-31781400	Weak transcription	Brain Anterior Caudate	brain
44	chr6:31775200-31781400	Weak transcription	Brain Substantia Nigra	brain
45	chr6:31775200-31781400	Weak transcription	Duodenum Mucosa	Duodenum
46	chr6:31775200-31781400	Weak transcription	Fetal Intestine Large	intestine
47	chr6:31775200-31781400	Weak transcription	Fetal Intestine Small	intestine
48	chr6:31775200-31781400	Weak transcription	Fetal Kidney	kidney
49	chr6:31775200-31781400	Weak transcription	Rectal Smooth Muscle	rectum
50	chr6:31775200-31781600	Weak transcription	Fetal Lung	lung

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