Variant report

Variant	rs10828264
Chromosome Location	chr10:22017545-22017546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:21813792..21816149-chr10:22015675..22017990,2	MCF-7	breast:
2	chr10:22001640..22004162-chr10:22017196..22019106,3	K562	blood:
3	chr10:22017212..22020501-chr10:22023185..22027137,3	MCF-7	breast:
4	chr10:22013896..22015429-chr10:22016465..22018845,2	K562	blood:
5	chr10:21821572..21823122-chr10:22016099..22017832,2	MCF-7	breast:
6	chr10:22016488..22019556-chr10:22021211..22023885,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000078403	Chromatin interaction
ENSG00000180592	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10508639	1.00[CHB][hapmap]
rs10740991	1.00[CHB][hapmap]
rs10828252	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.82[MKK][hapmap]
rs10828266	1.00[CHB][hapmap]
rs11012737	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.82[MKK][hapmap]
rs11012794	1.00[CHB][hapmap];0.86[MKK][hapmap]
rs12356674	0.87[GIH][hapmap];0.82[MKK][hapmap]
rs1243180	1.00[YRI][hapmap]
rs1243192	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1243194	1.00[CHB][hapmap];0.94[GIH][hapmap]
rs1243195	1.00[CHB][hapmap]
rs1269454	1.00[CHB][hapmap]
rs2026092	1.00[CHB][hapmap];0.91[GIH][hapmap]
rs2050905	0.84[ASW][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes]
rs2066270	1.00[CHB][hapmap];0.91[GIH][hapmap]
rs2066271	1.00[CHB][hapmap];0.91[GIH][hapmap]
rs2666769	1.00[CHB][hapmap]
rs2666771	1.00[CHB][hapmap]
rs2666779	1.00[CHB][hapmap];0.91[GIH][hapmap]
rs2666782	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs2807977	1.00[CHB][hapmap]
rs2807979	1.00[CHB][hapmap]
rs3951780	1.00[CHB][hapmap];0.82[MKK][hapmap]
rs4024198	1.00[CHB][hapmap]
rs4748761	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7082663	1.00[CHB][hapmap]
rs7084454	1.00[CHB][hapmap]
rs792453	1.00[CHB][hapmap];0.85[GIH][hapmap]
rs792455	1.00[CHB][hapmap]
rs792456	0.81[GIH][hapmap]
rs806774	1.00[CHB][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550202	chr10:21856475-22027644	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1052464	chr10:21856531-22220087	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	esv1802317	chr10:21866085-22288132	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv894947	chr10:21869609-22117913	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv550203	chr10:21916468-22062729	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
6	esv3374002	chr10:22005580-22026097	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21984800-22022600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:21995000-22022600	Weak transcription	Spleen	Spleen
3	chr10:22000800-22022800	Weak transcription	Aorta	Aorta
4	chr10:22001600-22021200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr10:22002400-22027600	Weak transcription	Psoas Muscle	Psoas
6	chr10:22003000-22027400	Weak transcription	Colonic Mucosa	Colon
7	chr10:22003800-22019800	Weak transcription	Lung	lung
8	chr10:22004200-22022800	Weak transcription	Esophagus	oesophagus
9	chr10:22004200-22022800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:22005000-22024200	Weak transcription	Right Ventricle	heart
11	chr10:22009400-22019800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr10:22009400-22022600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr10:22009400-22022600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:22013000-22022600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:22013800-22018400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr10:22013800-22018800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr10:22013800-22022600	Weak transcription	Thymus	Thymus
18	chr10:22014000-22025000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr10:22014200-22022800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr10:22014200-22025400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr10:22014400-22019800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr10:22014400-22021000	Weak transcription	Brain Anterior Caudate	brain
23	chr10:22014400-22021600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr10:22014400-22022600	Weak transcription	Brain Substantia Nigra	brain
25	chr10:22014400-22022800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr10:22014400-22024200	Weak transcription	Brain Angular Gyrus	brain
27	chr10:22014400-22024200	Weak transcription	Brain Hippocampus Middle	brain
28	chr10:22014400-22025600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr10:22014400-22027400	Weak transcription	Hela-S3	cervix
30	chr10:22014400-22029600	Weak transcription	Colon Smooth Muscle	Colon
31	chr10:22014600-22020800	Weak transcription	Fetal Stomach	stomach
32	chr10:22014600-22022600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr10:22014600-22022600	Weak transcription	Fetal Muscle Trunk	muscle
34	chr10:22014600-22022600	Weak transcription	Fetal Muscle Leg	muscle
35	chr10:22014600-22022600	Weak transcription	Left Ventricle	heart
36	chr10:22014600-22024400	Weak transcription	Rectal Smooth Muscle	rectum
37	chr10:22014600-22027600	Weak transcription	Ovary	ovary
38	chr10:22014600-22032400	Weak transcription	Small Intestine	intestine
39	chr10:22014600-22033200	Weak transcription	Brain Cingulate Gyrus	brain
40	chr10:22015000-22025600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr10:22015000-22034200	Strong transcription	Dnd41	blood
42	chr10:22015200-22018800	Strong transcription	Placenta	Placenta
43	chr10:22015200-22024800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr10:22015200-22034200	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr10:22015200-22034400	Strong transcription	Primary B cells from peripheral blood	blood
46	chr10:22015400-22029600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr10:22015600-22017600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr10:22015600-22017800	Enhancers	HUVEC	blood vessel
49	chr10:22015600-22018000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr10:22015600-22018000	Strong transcription	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links