Variant report

Variant	rs58193236
Chromosome Location	chr1:173757638-173757639
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:173752462..173754220-chr1:173756865..173759011,2	MCF-7	breast:
2	chr1:173753678..173758387-chr1:173760653..173764131,5	K562	blood:

Variant related genes	Relation type
ENSG00000200674	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs2126126	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28865644	0.92[AFR][1000 genomes]
rs35515638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56660187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57520670	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58356308	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60228238	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60656154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61286800	0.97[AFR][1000 genomes]
rs6425260	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6663103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6674573	1.00[AMR][1000 genomes]
rs6694637	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73031308	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73031331	1.00[AMR][1000 genomes]
rs73033104	1.00[AMR][1000 genomes]
rs73033138	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035115	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035123	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035125	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035130	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035152	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035157	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73035162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73037024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73037030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73037052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73037062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7516013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7534260	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7534982	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7537349	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7542542	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7542780	0.95[AFR][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	nsv1012384	chr1:173614816-173974426	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	294 gene(s)	inside rSNPs	diseases
2	nsv831926	chr1:173702403-173894667	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	291 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173726200-173760600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:173728800-173764800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr1:173729800-173781800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:173735800-173781000	Weak transcription	Small Intestine	intestine
5	chr1:173736600-173792400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:173736800-173760600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr1:173741800-173759600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr1:173741800-173762400	Weak transcription	Stomach Mucosa	stomach
9	chr1:173742800-173759800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr1:173743200-173758800	Strong transcription	Primary T cells from cord blood	blood
11	chr1:173743400-173757800	Strong transcription	Dnd41	blood
12	chr1:173743400-173758000	Strong transcription	Fetal Thymus	thymus
13	chr1:173744800-173790200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr1:173745000-173767400	Weak transcription	NHEK	skin
15	chr1:173745000-173792400	Weak transcription	Psoas Muscle	Psoas
16	chr1:173745200-173765200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr1:173745800-173759600	Strong transcription	Liver	Liver
18	chr1:173747800-173769200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:173748600-173759000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr1:173749200-173792600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr1:173749800-173758200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr1:173749800-173777800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr1:173750400-173758800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr1:173750600-173760800	Weak transcription	Fetal Heart	heart
25	chr1:173751200-173773600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr1:173751400-173759600	Strong transcription	HSMM	muscle
27	chr1:173751400-173769000	Weak transcription	Fetal Intestine Small	intestine
28	chr1:173751400-173792200	Weak transcription	Fetal Kidney	kidney
29	chr1:173751800-173774600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr1:173752600-173790000	Weak transcription	HepG2	liver
31	chr1:173752800-173771800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr1:173752800-173777000	Weak transcription	Brain Angular Gyrus	brain
33	chr1:173753200-173760600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr1:173753200-173774400	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr1:173753200-173792200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr1:173753200-173792800	Weak transcription	Esophagus	oesophagus
37	chr1:173753400-173760600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr1:173753400-173760600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr1:173753400-173760600	Weak transcription	Lung	lung
40	chr1:173753400-173760800	Weak transcription	Fetal Brain Male	brain
41	chr1:173753400-173765400	Weak transcription	Fetal Stomach	stomach
42	chr1:173753400-173767200	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr1:173753400-173772200	Weak transcription	Aorta	Aorta
44	chr1:173753400-173774400	Weak transcription	Ovary	ovary
45	chr1:173753400-173775000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr1:173753400-173787800	Weak transcription	Right Ventricle	heart
47	chr1:173753400-173792600	Weak transcription	Spleen	Spleen
48	chr1:173753400-173792800	Weak transcription	Gastric	stomach
49	chr1:173753400-173792800	Weak transcription	Pancreas	Pancrea
50	chr1:173753600-173759800	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links