Variant report

Variant	rs61657599
Chromosome Location	chr6:28677514-28677515
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:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28675937..28678436-chr6:28714378..28717969,3	K562	blood:
2	chr6:28674230..28679862-chr6:28680075..28684685,7	K562	blood:
3	chr6:28322286..28324307-chr6:28675838..28677858,2	K562	blood:
4	chr6:28677418..28680355-chr6:28735511..28738375,2	K562	blood:
5	chr6:28582176..28585131-chr6:28677473..28678993,2	K562	blood:
6	chr6:28676470..28679014-chr6:28887895..28890764,2	K562	blood:
7	chr6:28664889..28672891-chr6:28674189..28678694,12	K562	blood:
8	chr6:28676549..28680840-chr6:28724202..28726516,6	K562	blood:
9	chr6:28659445..28664236-chr6:28674743..28678587,5	K562	blood:
10	chr6:27870121..27872000-chr6:28676419..28679069,2	K562	blood:
11	chr6:28677024..28680294-chr6:28708371..28711108,3	K562	blood:
12	chr6:28677491..28679930-chr6:28756497..28758578,2	K562	blood:
13	chr6:28653494..28655426-chr6:28676429..28678090,2	K562	blood:
14	chr6:28675753..28677785-chr6:28861605..28864200,2	K562	blood:
15	chr6:28676149..28677937-chr6:28921476..28924088,2	K562	blood:
16	chr6:28676549..28680032-chr6:28724574..28727425,3	K562	blood:
17	chr6:28673080..28675380-chr6:28676170..28678591,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000204713	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000232040	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10498733	0.83[ASN][1000 genomes]
rs1107160	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17398081	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1891757	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1936180	0.83[ASN][1000 genomes]
rs55641015	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56003969	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56296645	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56384403	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57170714	0.90[EUR][1000 genomes]
rs57693980	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57748269	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58104924	0.83[ASN][1000 genomes]
rs58238888	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58288624	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59233561	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs59475656	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60311527	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61208746	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61703239	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6901325	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6905871	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6906105	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6906506	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6909960	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7738101	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742889	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7748319	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7751884	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7754365	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7755641	0.83[ASN][1000 genomes]
rs7772111	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7772373	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7772482	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772682	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9688414	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9767343	0.92[ASN][1000 genomes]
rs9767359	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031671	chr6:28575172-28678126	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28676400-28678400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:28676400-28678600	Active TSS	H9 Cell Line	embryonic stem cell
3	chr6:28676400-28678600	Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr6:28676400-28678600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:28676400-28678600	Active TSS	A549	lung
6	chr6:28676400-28678800	Active TSS	H1 Cell Line	embryonic stem cell
7	chr6:28676400-28678800	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr6:28676600-28678000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
9	chr6:28676600-28678000	Active TSS	Placenta	Placenta
10	chr6:28676600-28678400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
11	chr6:28676600-28678400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:28676600-28678400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:28676600-28678600	Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr6:28676600-28678600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
15	chr6:28676600-28678600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:28676600-28678800	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr6:28676800-28677600	Active TSS	K562	blood
18	chr6:28676800-28677800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:28676800-28677800	Bivalent/Poised TSS	Brain Germinal Matrix	brain
20	chr6:28676800-28678400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:28676800-28678400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
22	chr6:28676800-28678400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:28677000-28677600	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:28677000-28677600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:28677000-28677600	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
26	chr6:28677000-28677600	Bivalent/Poised TSS	Fetal Muscle Trunk	muscle
27	chr6:28677000-28677600	Bivalent/Poised TSS	Fetal Muscle Leg	muscle
28	chr6:28677000-28677800	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:28677000-28677800	Bivalent/Poised TSS	Muscle Satellite Cultured Cells	--
30	chr6:28677000-28677800	Active TSS	HSMM	muscle
31	chr6:28677000-28677800	Bivalent/Poised TSS	HSMMtube	muscle
32	chr6:28677000-28677800	Active TSS	NHDF-Ad	bronchial
33	chr6:28677000-28678000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:28677000-28678000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:28677000-28678000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:28677000-28678000	Bivalent/Poised TSS	Fetal Brain Female	brain
37	chr6:28677000-28678000	Bivalent/Poised TSS	Psoas Muscle	Psoas
38	chr6:28677000-28678200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
39	chr6:28677000-28678200	Active TSS	Osteobl	bone
40	chr6:28677000-28678400	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:28677000-28678400	Flanking Active TSS	NHEK	skin
42	chr6:28677200-28677600	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:28677200-28677600	Bivalent/Poised TSS	Adipose Nuclei	Adipose
44	chr6:28677200-28677600	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
45	chr6:28677200-28677600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
46	chr6:28677200-28677600	Bivalent/Poised TSS	Fetal Thymus	thymus
47	chr6:28677200-28677600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
48	chr6:28677200-28677600	ZNF genes & repeats	GM12878-XiMat	blood
49	chr6:28677200-28677800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
50	chr6:28677200-28677800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood

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