Variant report

Variant	rs56240344
Chromosome Location	chr6:36818611-36818612
allele	A/G
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36818424..36822217-chr6:36952499..36954853,3	K562	blood:
2	chr6:36818402..36820845-chr6:36839633..36841729,2	K562	blood:
3	chr6:36792882..36794850-chr6:36817375..36819702,2	MCF-7	breast:
4	chr6:36732942..36735975-chr6:36816237..36818800,3	MCF-7	breast:
5	chr6:36748604..36750587-chr6:36817056..36819076,2	K562	blood:
6	chr6:36794960..36797017-chr6:36818260..36820420,2	MCF-7	breast:
7	chr6:36818579..36822639-chr6:36835896..36837920,3	K562	blood:
8	chr6:36818002..36820596-chr6:36841531..36843370,2	K562	blood:
9	chr6:36646643..36648189-chr6:36817431..36818959,2	MCF-7	breast:
10	chr6:36799628..36801268-chr6:36817100..36819975,2	K562	blood:
11	chr6:36803679..36805737-chr6:36818259..36820032,3	K562	blood:
12	chr6:36733684..36734542-chr6:36818608..36819485,3	MCF-7	breast:
13	chr6:36817709..36820546-chr6:36830678..36833403,3	MCF-7	breast:
14	chr6:36733614..36734738-chr6:36818383..36819576,11	MCF-7	breast:
15	chr6:36816600..36820003-chr6:36855117..36857436,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000198663	Chromatin interaction
ENSG00000137409	Chromatin interaction
ENSG00000137168	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10456445	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456447	0.84[AMR][1000 genomes]
rs10456448	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10947646	1.00[ASN][1000 genomes]
rs10947648	1.00[AFR][1000 genomes]
rs11964396	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12111266	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12111291	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12191780	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12193721	0.82[ASN][1000 genomes]
rs12195012	1.00[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12215873	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12524018	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12524422	0.86[EUR][1000 genomes]
rs12524649	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525180	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525540	0.86[EUR][1000 genomes]
rs12526699	0.99[EUR][1000 genomes]
rs12529199	0.91[EUR][1000 genomes]
rs12529769	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17374068	0.86[EUR][1000 genomes]
rs17552561	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1864753	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35694858	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs41272192	1.00[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs41408445	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4348312	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714013	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4714022	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55681762	0.91[EUR][1000 genomes]
rs55913388	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55928881	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs56302344	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66474948	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66566790	0.91[EUR][1000 genomes]
rs67273613	0.99[EUR][1000 genomes]
rs68042914	0.93[EUR][1000 genomes]
rs72846046	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72846078	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416282	0.86[EUR][1000 genomes]
rs7745555	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762601	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh 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	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1033261	chr6:36687424-36837315	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv5262	chr6:36799329-36826210	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36808600-36818800	Weak transcription	Dnd41	blood
2	chr6:36809000-36820200	Weak transcription	Thymus	Thymus
3	chr6:36809000-36823000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:36809200-36819200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:36811400-36823200	Weak transcription	Esophagus	oesophagus
6	chr6:36813200-36821200	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:36813200-36823200	Weak transcription	Brain Substantia Nigra	brain
8	chr6:36815200-36819200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:36815400-36819800	Enhancers	Fetal Muscle Leg	muscle
10	chr6:36815600-36819800	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr6:36816000-36819000	Enhancers	Fetal Muscle Trunk	muscle
12	chr6:36816000-36819800	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr6:36816200-36819000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:36816400-36818800	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:36816600-36823000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:36816800-36818800	Weak transcription	Ovary	ovary
17	chr6:36816800-36821800	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:36817000-36818800	Weak transcription	Fetal Kidney	kidney
19	chr6:36817000-36819200	Weak transcription	Aorta	Aorta
20	chr6:36817000-36819200	Weak transcription	HSMMtube	muscle
21	chr6:36817000-36819800	Enhancers	Brain Anterior Caudate	brain
22	chr6:36817000-36819800	Weak transcription	HepG2	liver
23	chr6:36817000-36820000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:36817000-36821400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr6:36817000-36823200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:36817000-36826200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:36817000-36841400	Weak transcription	Colonic Mucosa	Colon
28	chr6:36817200-36819000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:36817200-36819600	Weak transcription	Primary T cells from cord blood	blood
30	chr6:36817200-36820000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:36817200-36820400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:36817200-36820400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:36817200-36820600	Weak transcription	Brain Germinal Matrix	brain
34	chr6:36817200-36821200	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr6:36817200-36823200	Weak transcription	Gastric	stomach
36	chr6:36817200-36823200	Weak transcription	Pancreas	Pancrea
37	chr6:36817200-36823600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr6:36817200-36830200	Weak transcription	Fetal Lung	lung
39	chr6:36817200-36833400	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr6:36817200-36841200	Weak transcription	Fetal Brain Male	brain
41	chr6:36817200-36842000	Weak transcription	Stomach Mucosa	stomach
42	chr6:36817400-36818800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:36817400-36818800	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr6:36817400-36820800	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr6:36817400-36821400	Enhancers	Fetal Heart	heart
46	chr6:36817600-36818800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:36817600-36818800	Weak transcription	Osteobl	bone
48	chr6:36817600-36819200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
49	chr6:36817600-36820400	Weak transcription	NHEK	skin
50	chr6:36817600-36821000	Weak transcription	Fetal Intestine Large	intestine

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