Variant report

Variant	rs73401666
Chromosome Location	chr6:28337472-28337473
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28326753..28329477-chr6:28335475..28338195,2	K562	blood:
2	chr6:28315888..28318134-chr6:28337466..28339309,2	MCF-7	breast:
3	chr6:28336184..28339998-chr6:28343727..28348047,5	K562	blood:
4	chr6:28318727..28321441-chr6:28336675..28338219,2	K562	blood:
5	chr6:28336816..28339223-chr6:28349568..28351639,2	MCF-7	breast:
6	chr6:28335113..28339342-chr6:28340295..28342925,4	K562	blood:
7	chr6:28335113..28339342-chr6:28340295..28342683,4	K562	blood:
8	chr6:28331703..28333940-chr6:28336261..28337790,2	MCF-7	breast:
9	chr6:28303740..28306465-chr6:28335906..28338559,3	MCF-7	breast:
10	chr6:28304066..28305793-chr6:28336163..28337903,2	K562	blood:
11	chr6:28336184..28339617-chr6:28343727..28347086,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000189298	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1015810	0.91[EUR][1000 genomes]
rs1150669	0.91[EUR][1000 genomes]
rs1150671	0.91[EUR][1000 genomes]
rs11965542	1.00[EUR][1000 genomes]
rs11966042	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966237	1.00[EUR][1000 genomes]
rs11967622	0.91[EUR][1000 genomes]
rs11969150	1.00[EUR][1000 genomes]
rs11970404	0.91[EUR][1000 genomes]
rs12333002	0.82[EUR][1000 genomes]
rs1233667	0.91[EUR][1000 genomes]
rs1233698	0.91[EUR][1000 genomes]
rs1233702	0.91[EUR][1000 genomes]
rs2078422	0.91[EUR][1000 genomes]
rs213227	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs213235	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2159274	0.91[EUR][1000 genomes]
rs2232439	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2531801	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2531802	0.91[EUR][1000 genomes]
rs2531812	0.91[EUR][1000 genomes]
rs2531816	0.82[EUR][1000 genomes]
rs2531819	0.91[EUR][1000 genomes]
rs2531826	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2531828	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28382592	0.82[EUR][1000 genomes]
rs2859349	0.91[EUR][1000 genomes]
rs2859350	0.91[EUR][1000 genomes]
rs2859353	0.82[EUR][1000 genomes]
rs2859354	0.91[EUR][1000 genomes]
rs2859359	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2859362	1.00[EUR][1000 genomes]
rs2859367	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859371	0.91[EUR][1000 genomes]
rs2859376	0.91[EUR][1000 genomes]
rs2859377	0.91[EUR][1000 genomes]
rs2859378	0.91[EUR][1000 genomes]
rs385908	0.91[EUR][1000 genomes]
rs400987	0.91[EUR][1000 genomes]
rs403774	0.91[EUR][1000 genomes]
rs423118	0.91[EUR][1000 genomes]
rs59457415	1.00[EUR][1000 genomes]
rs61540948	0.91[EUR][1000 genomes]
rs62638680	1.00[EUR][1000 genomes]
rs6908414	0.91[EUR][1000 genomes]
rs6910942	0.91[EUR][1000 genomes]
rs6916243	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6928131	0.91[EUR][1000 genomes]
rs6932313	0.91[EUR][1000 genomes]
rs6932394	1.00[EUR][1000 genomes]
rs719370	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73385806	1.00[EUR][1000 genomes]
rs73385807	1.00[EUR][1000 genomes]
rs73385810	1.00[EUR][1000 genomes]
rs73385818	1.00[EUR][1000 genomes]
rs73385870	1.00[EUR][1000 genomes]
rs73387810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73399084	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73400525	0.91[EUR][1000 genomes]
rs73400579	0.91[EUR][1000 genomes]
rs73400580	1.00[EUR][1000 genomes]
rs73400590	1.00[EUR][1000 genomes]
rs73401012	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73402513	1.00[EUR][1000 genomes]
rs7739389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752608	1.00[ASN][1000 genomes]
rs7759845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468305	0.91[EUR][1000 genomes]
rs9468306	0.91[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28318400-28350800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:28324400-28347600	Weak transcription	NHDF-Ad	bronchial
3	chr6:28324400-28347800	Weak transcription	Fetal Brain Male	brain
4	chr6:28324400-28348200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:28324400-28357200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:28324400-28357600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:28324600-28349400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:28324600-28349600	Weak transcription	NHEK	skin
9	chr6:28324600-28358600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr6:28324800-28341600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:28325400-28350800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:28327000-28337600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:28327200-28338400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:28330800-28337600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:28330800-28338600	Strong transcription	Primary T cells from cord blood	blood
16	chr6:28331200-28337600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:28332000-28350600	Weak transcription	Psoas Muscle	Psoas
18	chr6:28333800-28345800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:28333800-28347800	Weak transcription	HUVEC	blood vessel
20	chr6:28333800-28348000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:28333800-28349800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr6:28333800-28349800	Weak transcription	Pancreas	Pancrea
23	chr6:28333800-28350800	Weak transcription	Lung	lung
24	chr6:28333800-28351000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr6:28334000-28338200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:28334000-28338400	Weak transcription	Fetal Brain Female	brain
27	chr6:28334000-28345600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:28334000-28346600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:28334000-28346800	Weak transcription	Fetal Kidney	kidney
30	chr6:28334000-28348000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:28334000-28350000	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:28334000-28350600	Weak transcription	Colonic Mucosa	Colon
33	chr6:28334000-28350800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:28334200-28345200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr6:28334200-28345600	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr6:28334200-28345600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr6:28334200-28346000	Weak transcription	Fetal Intestine Small	intestine
38	chr6:28334200-28346000	Weak transcription	HMEC	breast
39	chr6:28334200-28346200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr6:28334200-28347800	Weak transcription	NHLF	lung
41	chr6:28334200-28348000	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr6:28334200-28348000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr6:28334200-28348200	Weak transcription	Brain Substantia Nigra	brain
44	chr6:28334200-28348800	Weak transcription	Fetal Heart	heart
45	chr6:28334200-28349400	Weak transcription	Right Ventricle	heart
46	chr6:28334200-28349800	Weak transcription	Aorta	Aorta
47	chr6:28334200-28351000	Weak transcription	Gastric	stomach
48	chr6:28334200-28351200	Weak transcription	Spleen	Spleen
49	chr6:28334400-28338200	Weak transcription	Colon Smooth Muscle	Colon
50	chr6:28334400-28345600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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