Variant report

Variant	rs781658
Chromosome Location	chr4:57779567-57779568
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:57772971..57776902-chr4:57777481..57784789,10	MCF-7	breast:
2	chr4:57778640..57781071-chr4:57785641..57787696,2	K562	blood:
3	chr4:57774412..57776864-chr4:57776976..57782053,6	K562	blood:

Variant related genes	Relation type
ENSG00000084093	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12645070	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17081933	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17081935	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17087335	0.86[EUR][1000 genomes]
rs2227901	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3796529	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4412049	0.83[AMR][1000 genomes]
rs55762216	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55879786	0.84[EUR][1000 genomes]
rs56155140	0.87[EUR][1000 genomes]
rs56162812	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs56281640	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57265257	0.86[EUR][1000 genomes]
rs58408429	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58548607	0.83[AMR][1000 genomes]
rs59713092	0.83[AMR][1000 genomes]
rs6554401	0.86[EUR][1000 genomes]
rs66790703	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67043033	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6852182	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6852997	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6853156	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72606404	0.86[EUR][1000 genomes]
rs72627508	0.86[EUR][1000 genomes]
rs72627509	0.83[EUR][1000 genomes]
rs73165958	0.83[AMR][1000 genomes]
rs73165962	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs73165963	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs73165969	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7658601	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7665147	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7687767	0.87[EUR][1000 genomes]
rs781656	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs781657	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs781663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv1012287	chr4:57652778-57853485	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv1012125	chr4:57668229-57865803	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv822562	chr4:57768655-57779715	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57775800-57786200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:57776200-57781200	Enhancers	Adipose Nuclei	Adipose
3	chr4:57776400-57780800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr4:57776400-57784000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr4:57776400-57789400	Weak transcription	Right Ventricle	heart
6	chr4:57776800-57780400	Genic enhancers	Fetal Thymus	thymus
7	chr4:57777000-57779800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr4:57777000-57784400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr4:57777000-57785400	Genic enhancers	Primary T cells fromperipheralblood	blood
10	chr4:57777000-57786400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr4:57777000-57795800	Weak transcription	A549	lung
12	chr4:57777000-57796600	Weak transcription	Fetal Brain Female	brain
13	chr4:57777000-57797000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr4:57777200-57780200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr4:57777200-57793400	Weak transcription	HMEC	breast
16	chr4:57777200-57796600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr4:57777200-57796600	Weak transcription	Aorta	Aorta
18	chr4:57777200-57796800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr4:57777200-57797200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr4:57777400-57780000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:57777400-57780800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:57777400-57784600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr4:57777400-57786200	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr4:57777600-57779600	Weak transcription	Liver	Liver
25	chr4:57777600-57779600	Weak transcription	Spleen	Spleen
26	chr4:57777600-57780200	Weak transcription	Psoas Muscle	Psoas
27	chr4:57777600-57780400	Genic enhancers	Thymus	Thymus
28	chr4:57777600-57780600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr4:57777600-57782000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr4:57777600-57783200	Weak transcription	Osteobl	bone
31	chr4:57777600-57784000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
32	chr4:57777600-57785800	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr4:57777600-57796000	Weak transcription	Brain Anterior Caudate	brain
34	chr4:57777600-57796000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr4:57777600-57796600	Weak transcription	Colonic Mucosa	Colon
36	chr4:57777600-57803200	Weak transcription	NHDF-Ad	bronchial
37	chr4:57777600-57805600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr4:57777600-57806000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr4:57777800-57780200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr4:57777800-57780200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr4:57778000-57779600	Weak transcription	Fetal Lung	lung
42	chr4:57778000-57779800	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr4:57778000-57779800	Weak transcription	Gastric	stomach
44	chr4:57778000-57780200	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr4:57778000-57781000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
46	chr4:57778000-57781800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr4:57778000-57781800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
48	chr4:57778000-57785600	Strong transcription	Fetal Stomach	stomach
49	chr4:57778000-57791800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr4:57778000-57796000	Weak transcription	H9 Cell Line	embryonic stem cell

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