Variant report

Variant	rs60700685
Chromosome Location	chr3:46581489-46581490
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10490771	0.85[AMR][1000 genomes]
rs11574432	0.85[AMR][1000 genomes]
rs11574438	0.85[AMR][1000 genomes]
rs11574444	0.85[AMR][1000 genomes]
rs11575823	0.85[AMR][1000 genomes]
rs1607738	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078868	0.85[AMR][1000 genomes]
rs17078932	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078949	1.00[AMR][1000 genomes]
rs17141109	0.85[AMR][1000 genomes]
rs17141112	0.85[AMR][1000 genomes]
rs28584272	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3918378	0.85[AMR][1000 genomes]
rs3918383	0.85[AMR][1000 genomes]
rs3918386	0.85[AMR][1000 genomes]
rs41469351	0.85[AMR][1000 genomes]
rs41475349	0.85[AMR][1000 genomes]
rs41499550	0.85[AMR][1000 genomes]
rs57571354	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58889017	0.85[AMR][1000 genomes]
rs58970771	1.00[AMR][1000 genomes]
rs59568150	1.00[AMR][1000 genomes]
rs60938611	0.85[AMR][1000 genomes]
rs61151866	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61389423	1.00[AMR][1000 genomes]
rs61550542	1.00[AMR][1000 genomes]
rs61740461	1.00[AMR][1000 genomes]
rs72900271	1.00[AMR][1000 genomes]
rs72900273	1.00[AMR][1000 genomes]
rs72900285	1.00[AMR][1000 genomes]
rs72900287	0.85[AMR][1000 genomes]
rs72900298	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72902113	1.00[AMR][1000 genomes]
rs72902116	1.00[AMR][1000 genomes]
rs72902152	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9856096	0.85[AMR][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	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv876737	chr3:46569721-46595431	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46544800-46599400	Weak transcription	Right Atrium	heart
2	chr3:46549200-46585400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:46556400-46591000	Weak transcription	Psoas Muscle	Psoas
4	chr3:46558400-46591000	Weak transcription	Gastric	stomach
5	chr3:46567200-46586000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:46569000-46584200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:46571000-46583800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:46571600-46587000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:46577400-46581600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
10	chr3:46577600-46581600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
11	chr3:46578400-46581600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:46578400-46599200	Weak transcription	HSMMtube	muscle
13	chr3:46578800-46586200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:46579000-46581600	Enhancers	NHDF-Ad	bronchial
15	chr3:46579000-46583000	Weak transcription	Ovary	ovary
16	chr3:46579200-46581800	Flanking Active TSS	Dnd41	blood
17	chr3:46579200-46587800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr3:46579400-46581600	Flanking Active TSS	Primary T cells from cord blood	blood
19	chr3:46579400-46581600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
20	chr3:46579600-46584200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:46579800-46586200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:46580000-46581600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
23	chr3:46580000-46581600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
24	chr3:46580200-46581600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
25	chr3:46580200-46581800	Enhancers	K562	blood
26	chr3:46580200-46584400	Weak transcription	Placenta	Placenta
27	chr3:46580200-46586200	Weak transcription	Liver	Liver
28	chr3:46580400-46581600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
29	chr3:46580600-46581600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
30	chr3:46580600-46584400	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr3:46580600-46584400	Weak transcription	Fetal Muscle Leg	muscle
32	chr3:46580600-46584400	Weak transcription	Left Ventricle	heart
33	chr3:46580600-46586200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr3:46580800-46581600	Enhancers	Muscle Satellite Cultured Cells	--
35	chr3:46580800-46581600	Flanking Active TSS	GM12878-XiMat	blood
36	chr3:46580800-46582200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:46580800-46582400	Enhancers	Duodenum Mucosa	Duodenum
38	chr3:46580800-46583600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr3:46580800-46586400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr3:46581000-46581600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr3:46581000-46581600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:46581000-46581600	Enhancers	Rectal Mucosa Donor 31	rectum
43	chr3:46581000-46581600	Enhancers	Spleen	Spleen
44	chr3:46581000-46583600	Weak transcription	NH-A	brain
45	chr3:46581000-46583800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:46581000-46583800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr3:46581000-46584400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr3:46581200-46581600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr3:46581200-46581600	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr3:46581200-46581600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links