Variant report

Variant	rs3775666
Chromosome Location	chr4:143093311-143093312
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143092506..143095371-chr4:143126612..143129573,2	MCF-7	breast:
2	chr4:143087448..143089184-chr4:143091466..143093701,2	MCF-7	breast:
3	chr4:143086848..143088594-chr4:143091146..143093660,2	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs13107751	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13139397	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13148456	0.85[AMR][1000 genomes]
rs13150427	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13152233	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2055212	0.85[EUR][1000 genomes]
rs2055213	0.85[EUR][1000 genomes]
rs34204414	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34564415	0.80[AMR][1000 genomes]
rs34733226	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35107973	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35390852	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs3775670	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3775671	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55649528	0.80[AMR][1000 genomes]
rs67039841	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs67997859	1.00[AFR][1000 genomes];0.90[AMR][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	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1027781	chr4:142943485-143306567	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830097	chr4:142949705-143136372	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830098	chr4:143050143-143234384	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv595604	chr4:143077401-143228914	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143018800-143109600	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:143049800-143114400	Weak transcription	Right Ventricle	heart
3	chr4:143051400-143093400	Weak transcription	Left Ventricle	heart
4	chr4:143052400-143111600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:143052600-143094600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:143057800-143114400	Weak transcription	Aorta	Aorta
7	chr4:143058000-143181000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr4:143061800-143102200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:143069800-143112200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr4:143070400-143134400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr4:143071000-143117800	Weak transcription	Psoas Muscle	Psoas
12	chr4:143072000-143137000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr4:143076800-143107200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr4:143076800-143113200	Weak transcription	Pancreas	Pancrea
15	chr4:143078200-143103400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr4:143079600-143093600	Weak transcription	Fetal Muscle Leg	muscle
17	chr4:143081000-143128200	Weak transcription	NHDF-Ad	bronchial
18	chr4:143082000-143130000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr4:143082400-143095000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr4:143082400-143134800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr4:143082600-143094200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr4:143082800-143115800	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr4:143083200-143093800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr4:143083200-143100000	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr4:143084600-143099600	Weak transcription	Fetal Heart	heart
26	chr4:143086800-143096600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr4:143088600-143108200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:143088800-143096200	Weak transcription	Ovary	ovary
29	chr4:143089000-143095200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr4:143089000-143096400	Strong transcription	HMEC	breast
31	chr4:143089000-143108400	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr4:143089200-143095200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr4:143089400-143118000	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr4:143089800-143095800	Strong transcription	Dnd41	blood
35	chr4:143089800-143100000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr4:143090000-143117400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr4:143090200-143094000	Weak transcription	Primary T cells from cord blood	blood
38	chr4:143090200-143096200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr4:143091400-143097200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
40	chr4:143091600-143095600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr4:143091600-143096400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr4:143091600-143096400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:143091600-143100600	Strong transcription	HSMMtube	muscle
44	chr4:143091600-143106200	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr4:143091800-143095000	Strong transcription	HSMM	muscle
46	chr4:143092000-143103200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr4:143092200-143094200	Weak transcription	NHEK	skin
48	chr4:143092400-143116200	Weak transcription	Stomach Smooth Muscle	stomach
49	chr4:143092400-143131000	Weak transcription	Fetal Intestine Large	intestine
50	chr4:143092600-143094200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links