Variant report

Variant	rs11663219
Chromosome Location	chr18:12729246-12729247
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	chr18:12727418..12729485-chr18:12735947..12737729,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11080593	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11663226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11663260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539813	0.84[ASN][1000 genomes]
rs1833326	0.84[ASN][1000 genomes]
rs1893212	0.86[ASN][1000 genomes]
rs1893213	0.90[ASN][1000 genomes]
rs1893214	0.81[ASN][1000 genomes]
rs2015197	0.87[ASN][1000 genomes]
rs2249830	0.89[ASN][1000 genomes]
rs2542172	0.84[ASN][1000 genomes]
rs2542174	0.84[ASN][1000 genomes]
rs2542175	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2542176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2542177	0.91[ASN][1000 genomes]
rs2847246	0.86[ASN][1000 genomes]
rs2847247	0.84[ASN][1000 genomes]
rs2847254	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2847272	0.87[ASN][1000 genomes]
rs2847305	0.84[ASN][1000 genomes]
rs4796966	0.82[ASN][1000 genomes]
rs4797698	0.81[ASN][1000 genomes]
rs4797701	0.86[ASN][1000 genomes]
rs62095972	0.82[ASN][1000 genomes]
rs8089003	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	nsv491873	chr18:12159445-12739784	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
3	esv3528039	chr18:12396582-12851293	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	esv3528041	chr18:12396641-12851245	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv523743	chr18:12474505-12742809	Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	esv1817845	chr18:12635601-12733705	Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	esv1821625	chr18:12635601-12733705	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
9	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
10	nsv1064273	chr18:12697601-12828251	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
11	nsv909405	chr18:12727224-12750499	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv909406	chr18:12727224-12761498	ZNF genes & repeats Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	nsv1062149	chr18:12728115-12783898	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12723000-12748400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr18:12724200-12730000	Weak transcription	K562	blood
3	chr18:12724600-12729600	Weak transcription	Fetal Brain Female	brain
4	chr18:12724600-12729800	Weak transcription	HSMMtube	muscle
5	chr18:12725200-12729600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr18:12725200-12730200	Weak transcription	A549	lung
7	chr18:12725600-12729400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr18:12725600-12729400	Weak transcription	HepG2	liver
9	chr18:12725800-12729800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr18:12725800-12729800	Weak transcription	Hela-S3	cervix
11	chr18:12726200-12729400	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr18:12726200-12740400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr18:12726600-12735600	Weak transcription	Right Atrium	heart
14	chr18:12726800-12730200	Weak transcription	HMEC	breast
15	chr18:12727000-12729400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr18:12727000-12729400	Weak transcription	GM12878-XiMat	blood
17	chr18:12727000-12730000	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr18:12727000-12730200	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr18:12727000-12730400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr18:12727000-12730600	Weak transcription	Placenta	Placenta
21	chr18:12727000-12745800	Weak transcription	Thymus	Thymus
22	chr18:12727200-12729400	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr18:12727200-12729400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr18:12727200-12729400	Weak transcription	Primary T cells from cord blood	blood
25	chr18:12727200-12729400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr18:12727200-12729400	Weak transcription	Fetal Muscle Leg	muscle
27	chr18:12727200-12729400	Weak transcription	NHEK	skin
28	chr18:12727200-12729600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr18:12727200-12730000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr18:12727200-12730200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr18:12727200-12730400	Weak transcription	Fetal Thymus	thymus
32	chr18:12727200-12730600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr18:12727200-12731800	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr18:12727200-12740600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr18:12727400-12729400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr18:12727600-12729600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr18:12727600-12729600	Weak transcription	Fetal Stomach	stomach
38	chr18:12727800-12729400	Weak transcription	HUVEC	blood vessel
39	chr18:12727800-12729600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr18:12728000-12730200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr18:12728200-12731200	Weak transcription	HSMM	muscle

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