Variant report

Variant	rs6808143
Chromosome Location	chr3:135989705-135989706
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10513002	0.92[EUR][1000 genomes]
rs13067714	0.92[EUR][1000 genomes]
rs16843879	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16843978	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17199880	0.92[EUR][1000 genomes]
rs17199978	0.92[EUR][1000 genomes]
rs17265675	0.92[EUR][1000 genomes]
rs3913715	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4125861	0.92[EUR][1000 genomes]
rs55654524	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56057807	0.92[EUR][1000 genomes]
rs56095774	0.81[AMR][1000 genomes]
rs56264828	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56336182	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67389407	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67452583	0.89[EUR][1000 genomes]
rs67525027	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67677899	0.92[EUR][1000 genomes]
rs67692166	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769582	0.84[AMR][1000 genomes]
rs67963055	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67971203	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7625592	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7650075	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7652176	0.92[AMR][1000 genomes];0.90[EUR][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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv508246	chr3:135922023-136038622	Active TSS Enhancers Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6808143	IL20RB	cis	Artery Tibial	GTEx

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135970200-135996000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:135970400-135995400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:135970600-135998800	Weak transcription	Fetal Brain Male	brain
4	chr3:135970600-135999200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:135970600-135999200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr3:135970600-136039400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:135970800-135995400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:135970800-135998000	Weak transcription	Hela-S3	cervix
9	chr3:135974800-135997800	Weak transcription	Stomach Mucosa	stomach
10	chr3:135976200-135996000	Weak transcription	Pancreas	Pancrea
11	chr3:135976200-135999400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:135976200-136012400	Weak transcription	NHLF	lung
13	chr3:135976200-136016400	Weak transcription	Colonic Mucosa	Colon
14	chr3:135976200-136021600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr3:135977400-135995600	Weak transcription	Fetal Lung	lung
16	chr3:135977400-135996000	Weak transcription	K562	blood
17	chr3:135977600-135995400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:135977800-135993600	Weak transcription	Fetal Kidney	kidney
19	chr3:135980800-135995000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr3:135980800-135995600	Weak transcription	Right Ventricle	heart
21	chr3:135980800-135997600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr3:135980800-135999200	Weak transcription	Small Intestine	intestine
23	chr3:135981000-135995200	Weak transcription	Brain Germinal Matrix	brain
24	chr3:135981000-135995400	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr3:135981000-135995400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:135981000-135998600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:135981200-135999200	Weak transcription	NHDF-Ad	bronchial
28	chr3:135981200-136052000	Weak transcription	NH-A	brain
29	chr3:135981600-135995000	Weak transcription	Psoas Muscle	Psoas
30	chr3:135981600-135995200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr3:135981600-135997200	Weak transcription	Colon Smooth Muscle	Colon
32	chr3:135981600-135998000	Weak transcription	Fetal Heart	heart
33	chr3:135981600-135998800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr3:135981600-136020400	Weak transcription	HUVEC	blood vessel
35	chr3:135981800-135995000	Weak transcription	Brain Substantia Nigra	brain
36	chr3:135981800-135995600	Weak transcription	Gastric	stomach
37	chr3:135981800-135999600	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr3:135982400-135995200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:135982600-135991400	Weak transcription	NHEK	skin
40	chr3:135982600-135997800	Weak transcription	HSMMtube	muscle
41	chr3:135982600-135999000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr3:135982600-136004000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:135982800-135995400	Weak transcription	Left Ventricle	heart
44	chr3:135982800-135995600	Weak transcription	Lung	lung
45	chr3:135982800-135995800	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr3:135983000-135995200	Weak transcription	Brain Angular Gyrus	brain
47	chr3:135983200-135995200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr3:135983200-135995400	Weak transcription	Adipose Nuclei	Adipose
49	chr3:135983400-135993400	Weak transcription	Fetal Muscle Leg	muscle
50	chr3:135983400-135995000	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links