Variant report

Variant	rs13202640
Chromosome Location	chr6:24796235-24796236
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24795220..24796960-chr6:24798718..24801409,2	K562	blood:
2	chr6:24790472..24792948-chr6:24795199..24797011,2	MCF-7	breast:
3	chr6:24794462..24796300-chr6:24800583..24803323,2	K562	blood:
4	chr6:24781477..24783859-chr6:24794716..24796721,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260286	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs13209580	0.92[EUR][1000 genomes]
rs34165745	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4076539	0.91[EUR][1000 genomes]
rs4076540	0.91[EUR][1000 genomes]
rs4078356	0.89[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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv428474	chr6:24714157-24797977	Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv5227	chr6:24774149-24824012	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS 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	12 gene(s)	inside rSNPs	diseases
6	nsv508396	chr6:24779648-24846309	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24776400-24803200	Weak transcription	HSMMtube	muscle
2	chr6:24776400-24807400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr6:24776800-24807600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:24777000-24797000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:24777000-24801200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:24777000-24802400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:24777000-24805000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:24777000-24806200	Weak transcription	Spleen	Spleen
9	chr6:24777000-24808000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:24777000-24809400	Weak transcription	Brain Germinal Matrix	brain
11	chr6:24777000-24811600	Weak transcription	Brain Hippocampus Middle	brain
12	chr6:24777000-24847600	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:24777000-24859600	Weak transcription	Psoas Muscle	Psoas
14	chr6:24777200-24802400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:24777200-24802400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr6:24777600-24802400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:24781000-24802400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr6:24782200-24797800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:24782400-24803000	Weak transcription	Pancreas	Pancrea
20	chr6:24783400-24802000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr6:24783600-24802400	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr6:24785000-24801200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:24785000-24802000	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:24786400-24798000	Weak transcription	Brain Anterior Caudate	brain
25	chr6:24786400-24799800	Weak transcription	Osteobl	bone
26	chr6:24786600-24799600	Weak transcription	Hela-S3	cervix
27	chr6:24787600-24797000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:24787600-24798600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:24787600-24799000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr6:24787600-24801400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:24787600-24806200	Weak transcription	Fetal Stomach	stomach
32	chr6:24787800-24797000	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr6:24787800-24797200	Weak transcription	Ovary	ovary
34	chr6:24787800-24797600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr6:24787800-24798800	Weak transcription	HepG2	liver
36	chr6:24787800-24802000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:24787800-24802600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:24787800-24802600	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:24788000-24805600	Weak transcription	Fetal Muscle Leg	muscle
40	chr6:24788000-24810200	Weak transcription	Left Ventricle	heart
41	chr6:24788000-24832000	Weak transcription	Brain Substantia Nigra	brain
42	chr6:24788200-24799600	Weak transcription	Liver	Liver
43	chr6:24788200-24802400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:24788400-24796800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:24788400-24797600	Weak transcription	NHEK	skin
46	chr6:24788600-24797000	Weak transcription	HMEC	breast
47	chr6:24788600-24797800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr6:24788600-24800800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr6:24788800-24797800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:24788800-24848200	Weak transcription	Rectal Mucosa Donor 29	rectum

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