Variant report

Variant	rs4125861
Chromosome Location	chr3:136038421-136038422
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10513002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067714	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16843879	0.93[EUR][1000 genomes]
rs16843978	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17199880	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17199978	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17265675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17266364	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3913715	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55654524	0.81[EUR][1000 genomes]
rs56057807	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56095774	0.83[EUR][1000 genomes]
rs56264828	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56336182	0.93[EUR][1000 genomes]
rs60270684	0.87[AMR][1000 genomes]
rs66494666	0.87[AMR][1000 genomes]
rs66637842	1.00[ASN][1000 genomes]
rs67230667	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67281610	0.87[AMR][1000 genomes]
rs67303976	0.87[AMR][1000 genomes]
rs67389407	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67452583	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67525027	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67677899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67692166	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6769582	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773604	1.00[ASN][1000 genomes]
rs67963055	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67971203	0.87[EUR][1000 genomes]
rs6808143	0.92[EUR][1000 genomes]
rs72985474	0.82[AFR][1000 genomes]
rs73224201	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7625592	0.87[EUR][1000 genomes]
rs7650075	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7652176	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
4	nsv4025	chr3:136017458-136065622	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135970600-136039400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr3:135981200-136052000	Weak transcription	NH-A	brain
3	chr3:135998000-136040200	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr3:135999800-136061200	Weak transcription	Hela-S3	cervix
5	chr3:136014200-136040000	Weak transcription	Small Intestine	intestine
6	chr3:136015000-136038800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr3:136016800-136045600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:136017000-136040000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:136018200-136051400	Weak transcription	A549	lung
10	chr3:136019000-136038600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:136020200-136039000	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:136020200-136040200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:136020200-136045200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr3:136020400-136045200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:136020400-136045200	Weak transcription	Colonic Mucosa	Colon
16	chr3:136020600-136045000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:136020600-136045200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:136020800-136040200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr3:136020800-136040200	Weak transcription	Esophagus	oesophagus
20	chr3:136020800-136042200	Weak transcription	Placenta	Placenta
21	chr3:136020800-136043000	Weak transcription	HSMM	muscle
22	chr3:136020800-136045000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr3:136021000-136038600	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr3:136021000-136038600	Weak transcription	Right Ventricle	heart
25	chr3:136021000-136038600	Weak transcription	GM12878-XiMat	blood
26	chr3:136021000-136038800	Weak transcription	Fetal Kidney	kidney
27	chr3:136021000-136040000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr3:136021000-136045400	Weak transcription	Gastric	stomach
29	chr3:136021000-136045600	Weak transcription	Osteobl	bone
30	chr3:136021200-136038800	Weak transcription	HSMMtube	muscle
31	chr3:136021200-136039800	Weak transcription	NHEK	skin
32	chr3:136021200-136040000	Weak transcription	Thymus	Thymus
33	chr3:136026000-136038600	Weak transcription	Brain Substantia Nigra	brain
34	chr3:136030600-136040200	Weak transcription	Pancreas	Pancrea
35	chr3:136032800-136055400	Weak transcription	HUVEC	blood vessel
36	chr3:136035000-136038600	Strong transcription	Adipose Nuclei	Adipose
37	chr3:136035400-136039000	Strong transcription	Left Ventricle	heart
38	chr3:136035600-136038600	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr3:136035600-136038600	Strong transcription	Stomach Smooth Muscle	stomach
40	chr3:136035600-136038800	Strong transcription	Brain Cingulate Gyrus	brain
41	chr3:136035600-136039000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr3:136035600-136040200	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr3:136035600-136040600	Strong transcription	Skeletal Muscle Male	skeletal muscle
44	chr3:136035800-136038600	Strong transcription	Fetal Lung	lung
45	chr3:136035800-136038800	Strong transcription	Liver	Liver
46	chr3:136035800-136039000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:136036000-136038800	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:136036200-136038600	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr3:136036200-136038800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:136036400-136044200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links