Variant report

Variant	rs158797
Chromosome Location	chr5:36870420-36870421
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:15)
LncRNA
region (count:1)
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	chr5:36739872..36740401-chr5:36870242..36870784,2	K562	blood:
2	chr5:36734294..36735153-chr5:36870203..36871275,5	MCF-7	breast:
3	chr5:36769638..36772454-chr5:36869718..36872304,2	K562	blood:
4	chr5:36744540..36745365-chr5:36870089..36871235,6	MCF-7	breast:
5	chr5:36778726..36780418-chr5:36869176..36871544,2	K562	blood:
6	chr5:36739389..36740461-chr5:36870260..36871235,10	MCF-7	breast:
7	chr5:36868967..36871389-chr5:36872462..36873999,2	MCF-7	breast:
8	chr5:36862319..36866798-chr5:36867132..36872368,6	K562	blood:
9	chr5:36744753..36745265-chr5:36870351..36870936,2	MCF-7	breast:
10	chr5:36744806..36745414-chr5:36870332..36871147,2	K562	blood:
11	chr5:36835501..36837986-chr5:36868760..36872023,3	MCF-7	breast:
12	chr5:36858219..36859940-chr5:36868388..36870701,2	MCF-7	breast:
13	chr5:36777128..36778226-chr5:36870306..36870984,4	MCF-7	breast:
14	chr5:36727925..36729564-chr5:36870241..36872217,2	K562	blood:
15	chr5:36728831..36729876-chr5:36870166..36871184,4	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C5orf42-2	chr5:36867686-36876860	NONHSAT101045

No data

Variant related genes	Relation type
ENSG00000272103	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12656269	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12659960	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12659981	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12659983	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13183090	0.89[ASN][1000 genomes]
rs151945	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs151946	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs151947	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs158410	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs158411	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs158412	0.97[ASN][1000 genomes]
rs158792	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs158793	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs158794	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs158798	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158799	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158802	0.92[ASN][1000 genomes]
rs159140	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs159141	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs167146	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16903459	0.87[ASN][1000 genomes]
rs181755	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2133786	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs245587	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs245588	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs292160	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs292179	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs292180	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs292181	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs292186	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs292196	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs293746	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs293748	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[ASN][1000 genomes]
rs293774	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs294695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34701667	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34920909	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35011787	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35135658	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35263618	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35701604	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35899185	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs468022	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56261529	0.90[ASN][1000 genomes]
rs58952013	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59889951	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66868318	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492319	chr5:36570707-37061019	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv525478	chr5:36804225-37349895	Strong transcription Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv532133	chr5:36834932-36906436	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
4	esv1793961	chr5:36866835-37361728	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers 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

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36862400-36874000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr5:36862600-36873600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr5:36862600-36874800	Weak transcription	Aorta	Aorta
4	chr5:36862800-36873800	Weak transcription	NH-A	brain
5	chr5:36863000-36874800	Weak transcription	Left Ventricle	heart
6	chr5:36864000-36873400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:36864400-36873200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr5:36864600-36871600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr5:36864600-36874000	Weak transcription	Fetal Stomach	stomach
10	chr5:36864600-36874000	Weak transcription	Thymus	Thymus
11	chr5:36864800-36873600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr5:36864800-36874000	Weak transcription	Fetal Intestine Small	intestine
13	chr5:36864800-36874800	Weak transcription	Placenta	Placenta
14	chr5:36865400-36871400	Weak transcription	Fetal Brain Female	brain
15	chr5:36865800-36873400	Weak transcription	NHDF-Ad	bronchial
16	chr5:36866200-36873600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr5:36866200-36874000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr5:36866600-36871600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr5:36867400-36875200	Weak transcription	Lung	lung
20	chr5:36868200-36873400	Weak transcription	NHEK	skin
21	chr5:36868200-36874800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr5:36868400-36873800	Weak transcription	Rectal Smooth Muscle	rectum
23	chr5:36868400-36874000	Weak transcription	Fetal Kidney	kidney
24	chr5:36869000-36871400	Weak transcription	Fetal Brain Male	brain
25	chr5:36869400-36873200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr5:36869400-36873400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr5:36869400-36873600	Weak transcription	Brain Substantia Nigra	brain
28	chr5:36869600-36872000	Weak transcription	Brain Germinal Matrix	brain
29	chr5:36869800-36871000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr5:36869800-36871000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr5:36870000-36871000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr5:36870000-36874600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr5:36870200-36870600	Flanking Active TSS	Primary T cells from cord blood	blood
34	chr5:36870200-36871600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr5:36870200-36872600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr5:36870200-36872800	Enhancers	Primary T helper cells PMA-I stimulated	--
37	chr5:36870400-36870600	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr5:36870400-36870600	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr5:36870400-36870600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr5:36870400-36870600	Enhancers	A549	lung
41	chr5:36870400-36870800	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr5:36870400-36870800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr5:36870400-36870800	Enhancers	Primary hematopoietic stem cells	blood
44	chr5:36870400-36870800	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr5:36870400-36870800	Active TSS	GM12878-XiMat	blood
46	chr5:36870400-36870800	Enhancers	HUVEC	blood vessel
47	chr5:36870400-36871000	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr5:36870400-36871000	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr5:36870400-36871000	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr5:36870400-36871000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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