Variant report

Variant	rs17465493
Chromosome Location	chr7:7649967-7649968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7648154..7650779-chr7:7652193..7654912,3	K562	blood:
2	chr7:7644642..7646276-chr7:7649240..7651895,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MIOS-2	chr7:7649827-7650557	NONHSAT119120

Variant related genes	Relation type
ENSG00000164654	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10235484	1.00[ASN][1000 genomes]
rs10486183	1.00[AMR][1000 genomes]
rs10486184	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17169036	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17462946	1.00[AMR][1000 genomes]
rs17464197	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17464497	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17464517	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17464585	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17521499	1.00[AMR][1000 genomes]
rs17521814	1.00[AMR][1000 genomes]
rs17521904	1.00[AMR][1000 genomes]
rs17522077	1.00[AMR][1000 genomes]
rs17522625	1.00[AMR][1000 genomes]
rs28523594	1.00[ASN][1000 genomes]
rs60654515	1.00[AMR][1000 genomes]
rs6969871	1.00[AMR][1000 genomes]
rs73349851	1.00[ASN][1000 genomes]
rs7778775	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7782178	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949293	chr7:6990891-7711883	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1019498	chr7:7053923-7668373	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv538721	chr7:7053923-7668373	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	nsv887470	chr7:7310023-7655094	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv887472	chr7:7405069-7680697	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv606042	chr7:7427535-7876466	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
8	nsv887474	chr7:7519603-7679644	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
9	nsv887475	chr7:7519603-7679644	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
10	nsv887476	chr7:7519603-7680697	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
11	nsv887477	chr7:7531819-7810122	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
12	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
13	nsv8043	chr7:7589195-7862802	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
14	nsv1034199	chr7:7617835-7691176	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7609600-7650400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr7:7609600-7651000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr7:7609600-7652600	Weak transcription	Fetal Brain Male	brain
4	chr7:7610600-7654400	Weak transcription	Gastric	stomach
5	chr7:7611200-7652400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr7:7621600-7656400	Weak transcription	Aorta	Aorta
7	chr7:7622600-7650400	Weak transcription	HUVEC	blood vessel
8	chr7:7635000-7650000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr7:7636200-7651400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr7:7636600-7652000	Weak transcription	Hela-S3	cervix
11	chr7:7637600-7651400	Weak transcription	Thymus	Thymus
12	chr7:7637600-7658000	Weak transcription	Fetal Intestine Small	intestine
13	chr7:7638000-7651600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr7:7639600-7653800	Weak transcription	Fetal Heart	heart
15	chr7:7639600-7657200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr7:7639800-7651800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr7:7639800-7674600	Weak transcription	A549	lung
18	chr7:7640000-7650600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr7:7640000-7651000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr7:7645600-7650800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr7:7646800-7650600	Weak transcription	Fetal Thymus	thymus
22	chr7:7647000-7650200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr7:7647000-7650600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr7:7647000-7651200	Strong transcription	Muscle Satellite Cultured Cells	--
25	chr7:7647000-7654000	Weak transcription	Left Ventricle	heart
26	chr7:7647000-7656800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr7:7647200-7650600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr7:7647200-7651800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr7:7647200-7652400	Weak transcription	Stomach Smooth Muscle	stomach
30	chr7:7647200-7656400	Weak transcription	Dnd41	blood
31	chr7:7647400-7651600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:7647600-7652200	Weak transcription	Placenta	Placenta
33	chr7:7647600-7653800	Weak transcription	K562	blood
34	chr7:7647800-7650600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr7:7647800-7651400	Weak transcription	Fetal Brain Female	brain
36	chr7:7647800-7651600	Weak transcription	Fetal Kidney	kidney
37	chr7:7647800-7651800	Weak transcription	NHDF-Ad	bronchial
38	chr7:7647800-7652600	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr7:7647800-7655600	Weak transcription	GM12878-XiMat	blood
40	chr7:7647800-7657600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr7:7648000-7651200	Weak transcription	Fetal Intestine Large	intestine
42	chr7:7648000-7656600	Weak transcription	Primary T cells from cord blood	blood
43	chr7:7648200-7650400	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr7:7648200-7651800	Weak transcription	Primary hematopoietic stem cells	blood
45	chr7:7648400-7650000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr7:7648400-7650200	Weak transcription	Liver	Liver
47	chr7:7648600-7650200	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr7:7648600-7650200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr7:7648600-7650200	Weak transcription	Primary B cells from peripheral blood	blood
50	chr7:7648600-7651400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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