Variant report

Variant	rs10218880
Chromosome Location	chr10:52342192-52342193
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:52341787..52346100-chr10:52382899..52385718,8	MCF-7	breast:
2	chr10:52331103..52333638-chr10:52341359..52343782,2	K562	blood:
3	chr10:52335913..52338170-chr10:52340995..52342949,2	MCF-7	breast:
4	chr10:52342133..52345402-chr10:52352257..52355042,3	MCF-7	breast:
5	chr10:52340909..52343314-chr10:52378678..52381107,3	K562	blood:
6	chr10:52305032..52307353-chr10:52341275..52344217,2	K562	blood:
7	chr10:52340715..52342372-chr10:52372792..52375032,2	MCF-7	breast:
8	chr10:52338640..52342298-chr10:52355605..52360278,4	MCF-7	breast:
9	chr10:52342059..52344112-chr10:52362150..52364434,3	K562	blood:
10	chr10:52340514..52343109-chr10:52378678..52380936,3	K562	blood:
11	chr10:52337504..52344093-chr10:52356709..52361052,9	K562	blood:
12	chr10:52338053..52345279-chr10:52380666..52386211,11	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000226200	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10218927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1028534	1.00[CEU][hapmap]
rs11006161	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006168	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006177	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12241613	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12243444	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12261465	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12262564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs12569801	1.00[CEU][hapmap]
rs12569909	1.00[CEU][hapmap]
rs12573520	1.00[CEU][hapmap]
rs13376734	1.00[CHB][hapmap]
rs16937491	1.00[CEU][hapmap]
rs16937771	1.00[CEU][hapmap]
rs16937775	1.00[CEU][hapmap]
rs16937786	1.00[CEU][hapmap]
rs16937874	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3001853	1.00[CHB][hapmap]
rs3001865	1.00[CHB][hapmap]
rs3001866	1.00[CHB][hapmap]
rs3739990	1.00[CEU][hapmap]
rs41427847	1.00[CEU][hapmap]
rs56808429	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58158894	1.00[ASN][1000 genomes]
rs58493447	1.00[EUR][1000 genomes]
rs61595381	1.00[EUR][1000 genomes]
rs66936815	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67025766	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67114363	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67414877	1.00[EUR][1000 genomes]
rs7077555	1.00[CHB][hapmap]
rs7096920	1.00[CHB][hapmap]
rs72803714	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7897345	1.00[CHB][hapmap]
rs7911643	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv8660	chr10:52328259-52346278	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52322000-52348600	Weak transcription	Fetal Stomach	stomach
2	chr10:52332600-52343800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr10:52335000-52343800	Enhancers	Liver	Liver
4	chr10:52336200-52346000	Weak transcription	Esophagus	oesophagus
5	chr10:52336200-52349000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr10:52336400-52346200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:52336400-52348600	Weak transcription	Lung	lung
8	chr10:52336600-52346000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:52336600-52346000	Weak transcription	NHEK	skin
10	chr10:52336800-52342600	Weak transcription	A549	lung
11	chr10:52336800-52363000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:52337000-52342400	Weak transcription	Right Ventricle	heart
13	chr10:52337000-52348000	Weak transcription	Thymus	Thymus
14	chr10:52337400-52342800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr10:52337800-52342200	Weak transcription	Gastric	stomach
16	chr10:52337800-52346200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr10:52337800-52346400	Weak transcription	Spleen	Spleen
18	chr10:52337800-52347800	Weak transcription	Fetal Thymus	thymus
19	chr10:52337800-52352800	Weak transcription	Fetal Brain Male	brain
20	chr10:52338000-52345600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:52338000-52346000	Weak transcription	Ovary	ovary
22	chr10:52338000-52346000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr10:52338000-52346200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr10:52338000-52346200	Weak transcription	HUVEC	blood vessel
25	chr10:52338000-52356400	Weak transcription	Fetal Brain Female	brain
26	chr10:52338000-52363800	Weak transcription	Fetal Kidney	kidney
27	chr10:52338000-52367000	Weak transcription	Aorta	Aorta
28	chr10:52338200-52346200	Weak transcription	NHDF-Ad	bronchial
29	chr10:52338200-52346400	Weak transcription	Adipose Nuclei	Adipose
30	chr10:52338200-52346400	Weak transcription	Osteobl	bone
31	chr10:52338200-52347600	Weak transcription	Fetal Muscle Leg	muscle
32	chr10:52338200-52347800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:52338200-52348800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr10:52338200-52353600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr10:52338200-52353800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr10:52338400-52346000	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr10:52338400-52346200	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr10:52338400-52348000	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr10:52338600-52344400	Weak transcription	Colon Smooth Muscle	Colon
40	chr10:52338600-52347600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr10:52338600-52353400	Weak transcription	Brain Germinal Matrix	brain
42	chr10:52338600-52353600	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr10:52338800-52347800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr10:52338800-52348000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:52339400-52344400	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr10:52339600-52342800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr10:52339600-52343000	Enhancers	Pancreas	Pancrea
48	chr10:52339600-52346000	Weak transcription	Placenta	Placenta
49	chr10:52340200-52342400	Enhancers	iPS-20b Cell Line	embryonic stem cell
50	chr10:52340200-52342400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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