Variant report

Variant	rs3098972
Chromosome Location	chr4:82180533-82180534
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10006067	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10488936	0.91[ASN][1000 genomes]
rs11722445	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11723613	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11723619	0.81[EUR][1000 genomes]
rs11725731	0.81[EUR][1000 genomes]
rs11938641	0.95[ASN][1000 genomes]
rs1377057	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1400746	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1443541	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1452365	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1467206	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1517550	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1517553	0.82[ASN][1000 genomes]
rs1517554	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1568201	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1662837	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1662838	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1662839	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1662840	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1662842	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1662843	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1662844	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1662846	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1712374	0.90[ASN][1000 genomes]
rs1712379	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17427459	0.82[ASN][1000 genomes]
rs17427571	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs17499327	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17556750	0.90[ASN][1000 genomes]
rs1878528	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1975474	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2011962	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2034629	0.85[ASN][1000 genomes]
rs2034632	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2044211	0.82[ASN][1000 genomes]
rs2109662	0.81[EUR][1000 genomes]
rs2120301	0.82[ASN][1000 genomes]
rs2197271	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2839753	0.81[EUR][1000 genomes]
rs28661028	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2868182	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3098970	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3098973	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3114136	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3114140	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4463061	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56075827	0.81[EUR][1000 genomes]
rs56123401	0.82[ASN][1000 genomes]
rs57222629	0.95[ASN][1000 genomes]
rs58877260	0.81[EUR][1000 genomes]
rs59498284	0.81[EUR][1000 genomes]
rs60825648	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61104118	0.82[ASN][1000 genomes]
rs61371439	0.95[ASN][1000 genomes]
rs62302272	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62302275	0.85[ASN][1000 genomes]
rs62302285	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62302286	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62302305	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62302308	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62302314	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6535240	0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6813437	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs710835	1.00[JPT][hapmap]
rs710838	0.84[ASN][1000 genomes]
rs710839	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs710840	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs710841	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7656390	0.81[EUR][1000 genomes]
rs7661369	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7685840	0.81[EUR][1000 genomes]
rs7691253	0.82[ASN][1000 genomes]
rs7698086	0.81[EUR][1000 genomes]
rs7699396	0.81[EUR][1000 genomes]
rs7699600	0.81[EUR][1000 genomes]
rs788855	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs788857	0.85[ASN][1000 genomes]
rs788861	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs788862	0.85[ASN][1000 genomes]
rs788863	0.84[ASN][1000 genomes]
rs788864	0.84[ASN][1000 genomes]
rs994014	0.87[AMR][1000 genomes];0.89[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	nsv999729	chr4:81802554-82627820	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537156	chr4:81802554-82627820	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:82175000-82183400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr4:82176200-82181200	Enhancers	Fetal Intestine Large	intestine
3	chr4:82176800-82181800	Enhancers	Fetal Intestine Small	intestine
4	chr4:82179200-82180800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr4:82179600-82180600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr4:82179600-82182200	Enhancers	Primary hematopoietic stem cells	blood
7	chr4:82180000-82181000	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr4:82180000-82183800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links