Variant report

Variant	rs4489611
Chromosome Location	chr1:97656535-97656536
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11165808	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12066332	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12083975	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088567	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12092946	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093141	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093238	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1514496	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1709411	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs67908389	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs67915441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72726631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72965876	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828056	0.84[AFR][1000 genomes]
rs9727438	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491816	chr1:97266403-98223619	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv530048	chr1:97457175-98031501	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1007950	chr1:97466488-98021146	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:97620200-97658400	Weak transcription	Lung	lung
2	chr1:97626600-97660400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr1:97627600-97657800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr1:97629400-97658200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr1:97635400-97658400	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr1:97636000-97660400	Weak transcription	Right Ventricle	heart
7	chr1:97636800-97657000	Weak transcription	Dnd41	blood
8	chr1:97639600-97658400	Weak transcription	HSMM	muscle
9	chr1:97639800-97658000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:97640000-97663000	Weak transcription	Esophagus	oesophagus
11	chr1:97640400-97657600	Weak transcription	Adipose Nuclei	Adipose
12	chr1:97641200-97658400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr1:97642000-97656800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr1:97643600-97660200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr1:97645400-97660200	Weak transcription	Left Ventricle	heart
16	chr1:97646200-97656800	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr1:97648800-97657200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr1:97648800-97659800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr1:97649000-97659800	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr1:97649000-97661200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr1:97649600-97662400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr1:97651800-97669800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr1:97652000-97658000	Weak transcription	Fetal Lung	lung
24	chr1:97652800-97658800	Strong transcription	Primary B cells from cord blood	blood
25	chr1:97653400-97660800	Weak transcription	Ovary	ovary
26	chr1:97653600-97659000	Strong transcription	Liver	Liver
27	chr1:97654000-97660200	Strong transcription	Primary T cells from cord blood	blood
28	chr1:97654200-97671200	Weak transcription	Small Intestine	intestine
29	chr1:97654600-97658000	Weak transcription	Primary hematopoietic stem cells	blood
30	chr1:97654600-97658200	Weak transcription	Psoas Muscle	Psoas
31	chr1:97654600-97659400	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr1:97655600-97656600	Enhancers	Muscle Satellite Cultured Cells	--
33	chr1:97655600-97656600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr1:97655600-97656600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr1:97655600-97656600	Enhancers	Brain Substantia Nigra	brain
36	chr1:97655800-97656600	Enhancers	Fetal Brain Male	brain
37	chr1:97655800-97656600	Enhancers	NHEK	skin
38	chr1:97655800-97658200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr1:97655800-97658600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr1:97655800-97659200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr1:97656000-97657800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr1:97656000-97659400	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr1:97656000-97659400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr1:97656200-97657400	Weak transcription	Brain Germinal Matrix	brain
45	chr1:97656200-97658400	Weak transcription	Colon Smooth Muscle	Colon
46	chr1:97656200-97658400	Weak transcription	Rectal Smooth Muscle	rectum
47	chr1:97656200-97668000	Weak transcription	Brain Cingulate Gyrus	brain
48	chr1:97656400-97656600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr1:97656400-97657800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr1:97656400-97657800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links