Variant report

Variant	rs33969824
Chromosome Location	chr3:42679777-42679778
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:42677644..42680168-chr3:42693244..42695506,2	MCF-7	breast:
2	chr12:89745823..89746379-chr3:42679541..42680340,2	NB4	blood:

Variant related genes	Relation type
ENSG00000139318	Chromatin interaction
ENSG00000114853	Chromatin interaction

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1062051	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067987	0.81[EUR][1000 genomes]
rs13072295	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13085695	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13089845	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13090902	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13093680	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13095447	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17074662	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074664	0.97[ASN][1000 genomes]
rs17074669	0.97[ASN][1000 genomes]
rs17074673	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17074674	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17074680	0.97[ASN][1000 genomes]
rs17074693	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2284303	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2284304	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2300057	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2300058	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2302352	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33984028	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34683820	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34687113	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34762478	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34801786	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34852409	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34977988	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35216140	0.82[EUR][1000 genomes]
rs35506005	0.89[ASN][1000 genomes]
rs35676838	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35770315	0.97[ASN][1000 genomes]
rs35871059	0.82[EUR][1000 genomes]
rs35890296	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36033201	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36043081	0.82[EUR][1000 genomes]
rs3774401	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774402	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774404	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774406	0.89[ASN][1000 genomes]
rs3774407	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821836	0.84[ASN][1000 genomes]
rs3846058	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846059	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3856737	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3886782	0.89[ASN][1000 genomes]
rs3900780	0.81[EUR][1000 genomes]
rs56047094	0.82[EUR][1000 genomes]
rs56797870	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57259216	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58868911	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59914338	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60232916	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60348477	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60535002	0.82[EUR][1000 genomes]
rs61149998	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441928	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66786953	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67059259	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67165547	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67533173	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67583158	0.82[EUR][1000 genomes]
rs6771105	0.82[EUR][1000 genomes]
rs6772312	0.87[ASN][1000 genomes]
rs6778982	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6782164	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67832425	0.82[EUR][1000 genomes]
rs6788548	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6790204	0.81[EUR][1000 genomes]
rs6793186	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6795296	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6797491	0.82[EUR][1000 genomes]
rs68004576	0.82[EUR][1000 genomes]
rs68028490	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs68071013	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72864072	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73829255	0.82[EUR][1000 genomes]
rs7617403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7617736	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623867	0.81[EUR][1000 genomes]
rs7624628	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002944	chr3:42559762-42728909	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42647200-42688200	Strong transcription	Primary monocytes fromperipheralblood	blood
2	chr3:42651200-42693000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:42651800-42680400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:42656200-42688400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr3:42658200-42682200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:42658200-42693000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:42658400-42691400	Strong transcription	Dnd41	blood
8	chr3:42659000-42688000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:42668000-42688200	Strong transcription	Fetal Thymus	thymus
10	chr3:42668400-42692800	Strong transcription	Fetal Muscle Trunk	muscle
11	chr3:42668800-42679800	Strong transcription	Osteobl	bone
12	chr3:42668800-42689200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:42668800-42690200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:42669000-42690600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:42669200-42691800	Strong transcription	Fetal Intestine Large	intestine
16	chr3:42669200-42692200	Strong transcription	Liver	Liver
17	chr3:42669400-42690600	Strong transcription	K562	blood
18	chr3:42669400-42691600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:42669400-42692200	Strong transcription	Fetal Muscle Leg	muscle
20	chr3:42669600-42690000	Strong transcription	Primary B cells from peripheral blood	blood
21	chr3:42669600-42691000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:42669800-42680600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr3:42671000-42690800	Strong transcription	Placenta	Placenta
24	chr3:42671200-42681400	Strong transcription	Fetal Brain Male	brain
25	chr3:42671200-42690800	Strong transcription	NHDF-Ad	bronchial
26	chr3:42671200-42691400	Strong transcription	HSMM	muscle
27	chr3:42671200-42691600	Strong transcription	NH-A	brain
28	chr3:42671400-42680400	Strong transcription	Skeletal Muscle Female	skeletal muscle
29	chr3:42671400-42680600	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:42671400-42682000	Strong transcription	NHEK	skin
31	chr3:42671400-42682200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr3:42671400-42682200	Strong transcription	HUVEC	blood vessel
33	chr3:42671400-42683000	Strong transcription	HSMMtube	muscle
34	chr3:42671400-42687600	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr3:42671400-42689800	Strong transcription	Primary B cells from cord blood	blood
36	chr3:42671400-42690600	Strong transcription	Fetal Lung	lung
37	chr3:42671400-42692200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:42671400-42692200	Strong transcription	Adipose Nuclei	Adipose
39	chr3:42671800-42683000	Strong transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:42672000-42680000	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr3:42672000-42681800	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr3:42672000-42689000	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr3:42672000-42689400	Strong transcription	Muscle Satellite Cultured Cells	--
44	chr3:42672000-42690600	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr3:42672000-42691800	Strong transcription	Stomach Smooth Muscle	stomach
46	chr3:42672200-42686400	Strong transcription	Brain Germinal Matrix	brain
47	chr3:42672200-42689000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:42672400-42683000	Strong transcription	Fetal Kidney	kidney
49	chr3:42672600-42679800	Strong transcription	Colon Smooth Muscle	Colon
50	chr3:42672600-42692200	Strong transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links