Variant report

Variant	rs72942230
Chromosome Location	chr3:101138184-101138185
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1078153	0.89[EUR][1000 genomes]
rs11929578	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12491044	0.88[EUR][1000 genomes]
rs12696325	0.89[EUR][1000 genomes]
rs1426386	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1464361	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1569071	0.89[EUR][1000 genomes]
rs2176887	0.84[EUR][1000 genomes]
rs2433032	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2449824	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2460721	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553414	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553420	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553421	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2553422	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553423	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2553428	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2682387	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2682389	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3846092	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4234491	0.89[EUR][1000 genomes]
rs4683930	0.88[EUR][1000 genomes]
rs472751	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs485037	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs485793	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs503252	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs503669	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs504482	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs513283	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs524261	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs534119	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs535779	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs551395	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs554030	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs556820	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs565914	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs566292	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61379928	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs63482	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6763679	0.82[AMR][1000 genomes]
rs6768114	0.88[EUR][1000 genomes]
rs6768182	0.89[EUR][1000 genomes]
rs6779278	0.89[EUR][1000 genomes]
rs6779775	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6788864	0.89[EUR][1000 genomes]
rs6791803	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72942264	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72948053	0.88[EUR][1000 genomes]
rs7618600	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7621062	0.89[EUR][1000 genomes]
rs7638284	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7648141	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs770968	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9917699	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv3439278	chr3:100936513-101162102	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101107000-101140800	Weak transcription	Esophagus	oesophagus
2	chr3:101107200-101161200	Weak transcription	Aorta	Aorta
3	chr3:101111600-101145800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr3:101120000-101142400	Weak transcription	Fetal Stomach	stomach
5	chr3:101124200-101140800	Weak transcription	Fetal Intestine Small	intestine
6	chr3:101127400-101143200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr3:101128000-101138400	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr3:101128600-101146200	Weak transcription	Dnd41	blood
9	chr3:101129200-101160000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr3:101129600-101140800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:101131200-101139000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr3:101131200-101142400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:101131600-101142400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:101133200-101140800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:101133400-101140800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:101133400-101140800	Weak transcription	Gastric	stomach
17	chr3:101133400-101140800	Weak transcription	Left Ventricle	heart
18	chr3:101133400-101142800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:101133400-101143000	Weak transcription	Spleen	Spleen
20	chr3:101133400-101143200	Weak transcription	Pancreas	Pancrea
21	chr3:101133600-101160600	Weak transcription	K562	blood
22	chr3:101133800-101140800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:101133800-101140800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:101133800-101142600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:101133800-101142600	Weak transcription	Fetal Thymus	thymus
26	chr3:101134000-101138400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:101134000-101139000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr3:101134600-101142200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr3:101134600-101142200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr3:101134600-101142400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr3:101134600-101143200	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr3:101134600-101143400	Weak transcription	Primary T cells from cord blood	blood
33	chr3:101134600-101143400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr3:101135000-101144200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr3:101135400-101142600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr3:101136000-101138200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr3:101136800-101138200	Enhancers	Fetal Lung	lung
38	chr3:101136800-101144200	Weak transcription	Primary B cells from peripheral blood	blood
39	chr3:101137000-101140800	Weak transcription	Primary B cells from cord blood	blood
40	chr3:101137200-101143600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr3:101137600-101142200	Weak transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links