Variant report

Variant	rs34026403
Chromosome Location	chr3:52908652-52908653
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52900079..52901582-chr3:52907440..52909357,2	K562	blood:
2	chr3:52907507..52909644-chr3:52922284..52925387,3	K562	blood:
3	chr3:52908141..52910474-chr3:52911838..52914428,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11130329	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705797	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11707829	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708337	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11708390	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11712498	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713324	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713376	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11713479	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11714793	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715498	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11716506	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11716612	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11720233	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11720488	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13060282	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13062228	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13067373	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13068194	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13076033	1.00[ASN][1000 genomes]
rs13089969	1.00[ASN][1000 genomes]
rs13095705	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1986656	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2336661	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2336665	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35230793	1.00[ASN][1000 genomes]
rs35404467	1.00[EUR][1000 genomes]
rs35569457	0.96[EUR][1000 genomes]
rs35651539	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36126605	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3733034	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3733035	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3796352	1.00[ASN][1000 genomes]
rs4608686	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56231111	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61473083	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6762260	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6798472	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71299621	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71299622	1.00[ASN][1000 genomes]
rs73839535	0.84[AMR][1000 genomes];0.99[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	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34026403	TMEM110	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52886600-52911000	Weak transcription	Primary B cells from cord blood	blood
2	chr3:52886600-52920000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr3:52886600-52930200	Weak transcription	Colonic Mucosa	Colon
4	chr3:52887000-52919400	Weak transcription	Fetal Brain Female	brain
5	chr3:52887000-52926400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:52887800-52923200	Weak transcription	Brain Germinal Matrix	brain
7	chr3:52889800-52909400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:52890000-52908800	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:52891600-52909400	Weak transcription	Ovary	ovary
10	chr3:52891600-52919600	Weak transcription	Left Ventricle	heart
11	chr3:52892000-52926400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:52894600-52911200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:52895000-52909000	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:52895400-52919400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:52895800-52923800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr3:52895800-52925200	Weak transcription	Esophagus	oesophagus
17	chr3:52896200-52909800	Weak transcription	Gastric	stomach
18	chr3:52898800-52909600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr3:52900000-52912800	Weak transcription	Primary B cells from peripheral blood	blood
20	chr3:52900600-52909000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr3:52900600-52912200	Weak transcription	Fetal Muscle Leg	muscle
22	chr3:52900800-52909400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr3:52900800-52912400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr3:52900800-52912800	Weak transcription	Fetal Intestine Small	intestine
25	chr3:52900800-52913000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:52901400-52910200	Weak transcription	Spleen	Spleen
27	chr3:52901800-52912800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr3:52902000-52909400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr3:52902200-52925200	Weak transcription	Placenta	Placenta
30	chr3:52902400-52909400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr3:52903400-52909200	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr3:52904000-52918400	Weak transcription	Fetal Intestine Large	intestine
33	chr3:52904200-52911200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:52904400-52912800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr3:52904600-52919400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr3:52904800-52909000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr3:52904800-52909400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr3:52904800-52912600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr3:52904800-52912800	Weak transcription	Primary hematopoietic stem cells	blood
40	chr3:52905000-52909800	Weak transcription	Psoas Muscle	Psoas
41	chr3:52905000-52919800	Weak transcription	Right Ventricle	heart
42	chr3:52905600-52910000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr3:52905600-52911200	Weak transcription	Fetal Stomach	stomach
44	chr3:52906000-52909600	Enhancers	K562	blood
45	chr3:52906000-52924400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:52906600-52909400	Weak transcription	HepG2	liver
47	chr3:52907400-52909000	Weak transcription	Dnd41	blood
48	chr3:52907600-52908800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:52907800-52909200	Enhancers	Liver	Liver
50	chr3:52907800-52909400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links