Variant report

Variant	rs58450672
Chromosome Location	chr4:119706462-119706463
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:119704843..119706853-chr4:119753213..119755649,2	MCF-7	breast:
2	chr4:119706080..119708529-chr4:119755979..119757565,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150961	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10011672	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10014208	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10470914	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10518322	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10518323	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10518324	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11098449	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11098450	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11730993	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11736024	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12505513	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12506295	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12506576	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12649666	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13109947	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13109966	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13114964	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13120798	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs13128195	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17050423	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs34384498	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs34616305	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs34730066	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs35868882	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs67175714	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7676832	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9997799	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[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	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv3355840	chr4:119296640-119774737	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119625800-119718000	Weak transcription	Hela-S3	cervix
2	chr4:119678600-119717400	Weak transcription	Esophagus	oesophagus
3	chr4:119679000-119717600	Weak transcription	Colonic Mucosa	Colon
4	chr4:119687600-119711800	Weak transcription	Stomach Mucosa	stomach
5	chr4:119688600-119710000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:119688600-119712800	Weak transcription	Gastric	stomach
7	chr4:119688600-119715800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr4:119688600-119717400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr4:119688600-119717400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:119688600-119732600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr4:119688800-119716800	Weak transcription	Fetal Kidney	kidney
12	chr4:119689400-119709000	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr4:119689400-119716200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr4:119689400-119716600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr4:119689400-119716800	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr4:119689600-119709400	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr4:119689600-119717600	Weak transcription	K562	blood
18	chr4:119689800-119708800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr4:119690000-119717600	Weak transcription	Primary T cells from cord blood	blood
20	chr4:119694000-119715000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr4:119694000-119717400	Weak transcription	Ovary	ovary
22	chr4:119694400-119716600	Weak transcription	Aorta	Aorta
23	chr4:119695000-119710000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr4:119695000-119717600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr4:119696400-119715600	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr4:119696800-119717400	Weak transcription	Spleen	Spleen
27	chr4:119698000-119706800	Weak transcription	HUVEC	blood vessel
28	chr4:119698000-119709400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr4:119698200-119712200	Weak transcription	Adipose Nuclei	Adipose
30	chr4:119702600-119717600	Weak transcription	Fetal Brain Male	brain
31	chr4:119703000-119711000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr4:119703400-119732200	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr4:119703600-119706600	Strong transcription	Liver	Liver
34	chr4:119703800-119738200	Strong transcription	Placenta	Placenta
35	chr4:119704000-119706800	Strong transcription	Dnd41	blood
36	chr4:119704000-119710000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr4:119704200-119712600	Strong transcription	NH-A	brain
38	chr4:119704200-119713000	Weak transcription	Lung	lung
39	chr4:119704200-119740000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr4:119704400-119708200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr4:119704400-119714000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr4:119704400-119717600	Weak transcription	Pancreas	Pancrea
43	chr4:119704600-119706600	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr4:119704600-119706800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr4:119704600-119708400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr4:119704600-119708400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr4:119704600-119708600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr4:119704600-119708600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr4:119704600-119708600	Weak transcription	Fetal Intestine Small	intestine
50	chr4:119704600-119709000	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links