Variant report

Variant	rs60051862
Chromosome Location	chr10:49541697-49541698
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49540878..49543802-chr10:49546206..49547724,2	K562	blood:
2	chr10:49540944..49543155-chr10:49549106..49551548,2	MCF-7	breast:
3	chr10:49517538..49519332-chr10:49540338..49542175,2	MCF-7	breast:
4	chr10:49530623..49533140-chr10:49541361..49542874,2	MCF-7	breast:
5	chr10:49538148..49542508-chr10:49545021..49547777,3	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1009477	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101287	0.82[AFR][1000 genomes]
rs11101291	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101297	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101301	0.85[AMR][1000 genomes]
rs11101303	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101315	0.85[AMR][1000 genomes]
rs11101316	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11101319	0.87[AFR][1000 genomes]
rs12241466	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12241476	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12244705	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12253926	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12261653	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12265885	1.00[AMR][1000 genomes]
rs12266878	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59115521	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7070529	0.91[AFR][1000 genomes]
rs7100777	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
6	nsv6587	chr10:49526329-49571804	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv947976	chr10:49537663-49541857	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49516400-49547200	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:49516400-49559600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:49517800-49544600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr10:49518200-49542200	Weak transcription	HSMM	muscle
5	chr10:49518800-49542000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr10:49518800-49544000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr10:49520200-49549800	Weak transcription	HUVEC	blood vessel
8	chr10:49522800-49550800	Weak transcription	Small Intestine	intestine
9	chr10:49525800-49551800	Weak transcription	Adipose Nuclei	Adipose
10	chr10:49526200-49552000	Weak transcription	NH-A	brain
11	chr10:49529000-49550800	Weak transcription	K562	blood
12	chr10:49530800-49554600	Weak transcription	Fetal Brain Male	brain
13	chr10:49535000-49541800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr10:49535400-49548200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr10:49536800-49541800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr10:49536800-49545200	Weak transcription	Brain Angular Gyrus	brain
17	chr10:49537400-49541800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr10:49538400-49543200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
19	chr10:49538400-49543200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:49538600-49541800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
21	chr10:49538600-49542200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr10:49538600-49542800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr10:49538600-49542800	ZNF genes & repeats	Brain Germinal Matrix	brain
24	chr10:49538600-49543000	ZNF genes & repeats	Fetal Stomach	stomach
25	chr10:49538600-49545400	Weak transcription	Hela-S3	cervix
26	chr10:49538600-49551400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:49538800-49541800	ZNF genes & repeats	Fetal Muscle Trunk	muscle
28	chr10:49538800-49542800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr10:49538800-49543000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr10:49538800-49544600	Weak transcription	Spleen	Spleen
31	chr10:49538800-49546600	Weak transcription	HSMMtube	muscle
32	chr10:49538800-49551200	Weak transcription	Brain Substantia Nigra	brain
33	chr10:49538800-49551400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr10:49539000-49542800	ZNF genes & repeats	Fetal Brain Female	brain
35	chr10:49539000-49551800	Weak transcription	NHLF	lung
36	chr10:49539200-49542800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr10:49539200-49555000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:49539400-49541800	Weak transcription	Thymus	Thymus
39	chr10:49539400-49542000	ZNF genes & repeats	Fetal Thymus	thymus
40	chr10:49539400-49542200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr10:49539400-49542400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr10:49539400-49548200	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr10:49539600-49543000	Strong transcription	Primary T cells from cord blood	blood
44	chr10:49539600-49553400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr10:49539800-49541800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr10:49539800-49541800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr10:49539800-49542000	Weak transcription	Psoas Muscle	Psoas
48	chr10:49539800-49542600	Weak transcription	Primary T cells fromperipheralblood	blood
49	chr10:49539800-49549800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr10:49540000-49543400	Weak transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links