Variant report

Variant	rs34027305
Chromosome Location	chr11:58907618-58907619
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	chr11:58904183..58908174-chr11:58910132..58913359,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MPEG1-2	chr11:58907430-58907640	ENSG00000245571
2	lnc-MPEG1-2	chr11:58907430-58907640	ENSG00000245571
3	lnc-MPEG1-2	chr11:58907430-58907640	NONHSAT021502
4	lnc-MPEG1-2	chr11:58907430-58907640	NR_110184

Variant related genes	Relation type
ENSG00000245571	Chromatin interaction
ENSG00000166801	Chromatin interaction

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10128661	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10437720	0.91[EUR][1000 genomes]
rs10792219	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10792221	0.93[EUR][1000 genomes]
rs10896914	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10896922	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10896924	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10896925	0.91[EUR][1000 genomes]
rs10896926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896928	0.92[EUR][1000 genomes]
rs10896929	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10896930	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10896931	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10896932	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10896933	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10896934	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10896935	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10896936	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10896937	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10896938	0.84[EUR][1000 genomes]
rs11229798	0.90[EUR][1000 genomes]
rs11229799	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11229800	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11229801	0.91[EUR][1000 genomes]
rs11229837	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229840	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11229848	0.90[EUR][1000 genomes]
rs11229849	0.93[EUR][1000 genomes]
rs11229851	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11229852	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11229854	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11229856	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11823977	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11825017	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12271831	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12272113	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12274008	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12275487	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12278163	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12280068	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12283633	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12292185	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12293649	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12293695	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12362905	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12802129	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17153379	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17153383	0.91[EUR][1000 genomes]
rs17153415	0.90[EUR][1000 genomes]
rs1938588	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1938589	0.91[EUR][1000 genomes]
rs1938781	0.92[EUR][1000 genomes]
rs2096544	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2096586	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2096587	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2105506	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2105507	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2154628	0.85[EUR][1000 genomes]
rs2186380	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2282482	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2282483	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2849739	0.86[EUR][1000 genomes]
rs34239454	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34501069	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35293773	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3802961	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs474847	0.91[EUR][1000 genomes]
rs55657403	0.86[EUR][1000 genomes]
rs55689653	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55989038	0.85[EUR][1000 genomes]
rs56137001	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56239606	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58722008	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61902181	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61902223	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7126078	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7933787	0.93[EUR][1000 genomes]
rs7950880	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv2758272	chr11:58700092-59008673	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv2759830	chr11:58700092-59008673	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	nsv975329	chr11:58767290-58907813	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	nsv430388	chr11:58769524-58925824	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:58875200-58909600	Weak transcription	Stomach Mucosa	stomach
2	chr11:58875400-58909600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr11:58893800-58909600	Weak transcription	Fetal Brain Male	brain
4	chr11:58899000-58909600	Weak transcription	Colon Smooth Muscle	Colon
5	chr11:58899600-58909600	Weak transcription	Aorta	Aorta
6	chr11:58899800-58909600	Weak transcription	Colonic Mucosa	Colon
7	chr11:58899800-58909800	Weak transcription	Gastric	stomach
8	chr11:58899800-58909800	Weak transcription	Small Intestine	intestine
9	chr11:58899800-58910000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:58900000-58909400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:58900000-58909400	Weak transcription	A549	lung
12	chr11:58900000-58909600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr11:58900000-58909600	Weak transcription	Fetal Lung	lung
14	chr11:58900000-58910000	Weak transcription	Spleen	Spleen
15	chr11:58900600-58909400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr11:58901200-58909600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr11:58901400-58909400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr11:58901400-58909800	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr11:58901800-58909000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr11:58902200-58909000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr11:58902400-58909400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr11:58902800-58908800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr11:58902800-58909000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr11:58903000-58909200	Weak transcription	HSMM	muscle
25	chr11:58903000-58909400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr11:58903000-58909400	Weak transcription	NHDF-Ad	bronchial
27	chr11:58903600-58909600	Weak transcription	Pancreas	Pancrea
28	chr11:58903600-58909800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr11:58903800-58908600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr11:58903800-58908600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr11:58903800-58908600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr11:58903800-58908600	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr11:58903800-58908600	Weak transcription	Brain Angular Gyrus	brain
34	chr11:58903800-58909000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr11:58903800-58909000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr11:58903800-58909000	Weak transcription	GM12878-XiMat	blood
37	chr11:58903800-58909200	Weak transcription	Hela-S3	cervix
38	chr11:58903800-58909200	Weak transcription	HMEC	breast
39	chr11:58903800-58909400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr11:58903800-58909400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr11:58903800-58909400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr11:58903800-58909400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr11:58903800-58909400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr11:58903800-58909400	Weak transcription	Fetal Thymus	thymus
45	chr11:58903800-58909400	Weak transcription	HUVEC	blood vessel
46	chr11:58903800-58909400	Weak transcription	NH-A	brain
47	chr11:58903800-58909600	Weak transcription	Brain Anterior Caudate	brain
48	chr11:58903800-58909600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr11:58903800-58909600	Weak transcription	Fetal Muscle Leg	muscle
50	chr11:58903800-58909600	Weak transcription	Placenta	Placenta

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