Variant report

Variant	rs10848569
Chromosome Location	chr12:1860541-1860542
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:1859249..1861989-chr12:1877875..1880136,2	MCF-7	breast:
2	chr12:1794172..1796468-chr12:1859826..1862181,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10773982	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10773986	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10773989	0.85[ASN][1000 genomes]
rs10848551	0.80[AMR][1000 genomes]
rs10848553	0.85[AMR][1000 genomes]
rs10848558	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11061919	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11061920	0.85[AMR][1000 genomes]
rs11061921	0.85[AMR][1000 genomes]
rs11061923	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11061924	0.85[AMR][1000 genomes]
rs11061927	0.85[AMR][1000 genomes]
rs11061937	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11061940	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11061957	0.89[AMR][1000 genomes]
rs11061962	0.91[AMR][1000 genomes]
rs11061968	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11061974	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1136213	0.85[AMR][1000 genomes]
rs11614639	0.92[ASN][1000 genomes]
rs11832817	0.88[AMR][1000 genomes]
rs12230579	0.88[AMR][1000 genomes]
rs12231894	0.91[AMR][1000 genomes]
rs12342	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12582624	0.91[AMR][1000 genomes]
rs12810020	0.91[AMR][1000 genomes]
rs12812707	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12813694	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12828908	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12831353	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2058034	0.85[AMR][1000 genomes]
rs2058035	0.85[AMR][1000 genomes]
rs2068485	0.92[ASN][1000 genomes]
rs2240613	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2286385	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2370055	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34375871	0.91[AMR][1000 genomes]
rs3809266	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4766413	0.84[AMR][1000 genomes]
rs6489323	0.86[AMR][1000 genomes]
rs6489324	0.91[AMR][1000 genomes]
rs66590925	0.91[AMR][1000 genomes]
rs7132033	0.85[AMR][1000 genomes]
rs7297509	0.91[AMR][1000 genomes]
rs7313760	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7975826	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7978818	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs929434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv1042863	chr12:1163817-1902302	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv541345	chr12:1163817-1902302	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv832304	chr12:1710249-1868642	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv832305	chr12:1769852-1936054	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv948480	chr12:1776217-2284333	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
6	nsv832306	chr12:1847726-2001308	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
7	nsv1038425	chr12:1857052-1902302	Weak transcription Enhancers Genic enhancers Strong transcription 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	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1816200-1866400	Weak transcription	Esophagus	oesophagus
2	chr12:1816200-1897400	Weak transcription	Aorta	Aorta
3	chr12:1823000-1866600	Weak transcription	Gastric	stomach
4	chr12:1824000-1866600	Weak transcription	HSMM	muscle
5	chr12:1826000-1885400	Weak transcription	NH-A	brain
6	chr12:1837000-1861600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr12:1845600-1885200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr12:1847600-1863800	Weak transcription	Ovary	ovary
9	chr12:1847600-1885200	Weak transcription	Right Atrium	heart
10	chr12:1849800-1868400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr12:1849800-1868800	Weak transcription	Pancreas	Pancrea
12	chr12:1849800-1905600	Weak transcription	Small Intestine	intestine
13	chr12:1850000-1866600	Weak transcription	Fetal Lung	lung
14	chr12:1850200-1865800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr12:1850200-1885200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr12:1850400-1863400	Weak transcription	Fetal Stomach	stomach
17	chr12:1850400-1870400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr12:1850400-1904800	Weak transcription	Fetal Kidney	kidney
19	chr12:1850800-1863400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr12:1850800-1863400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr12:1850800-1885200	Weak transcription	Right Ventricle	heart
22	chr12:1851000-1863400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr12:1851000-1866400	Weak transcription	NHLF	lung
24	chr12:1851400-1866600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr12:1851600-1863400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr12:1851600-1866400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr12:1851800-1863400	Weak transcription	Thymus	Thymus
28	chr12:1851800-1863600	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr12:1851800-1876600	Weak transcription	Stomach Mucosa	stomach
30	chr12:1854400-1864400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr12:1854600-1863400	Weak transcription	Adipose Nuclei	Adipose
32	chr12:1854600-1863400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr12:1854600-1870400	Weak transcription	HSMMtube	muscle
34	chr12:1855200-1861800	Weak transcription	Brain Anterior Caudate	brain
35	chr12:1855600-1863400	Weak transcription	Left Ventricle	heart
36	chr12:1855800-1862200	Weak transcription	Brain Hippocampus Middle	brain
37	chr12:1856000-1861600	Weak transcription	Brain Angular Gyrus	brain
38	chr12:1856000-1866400	Weak transcription	HUVEC	blood vessel
39	chr12:1856600-1872000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr12:1857000-1863400	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr12:1857000-1863800	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr12:1857200-1863000	Weak transcription	Dnd41	blood
43	chr12:1857200-1863400	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr12:1857200-1863400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr12:1857200-1863400	Weak transcription	NHEK	skin
46	chr12:1857200-1863600	Weak transcription	Primary T cells from cord blood	blood
47	chr12:1857200-1864400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr12:1857200-1864600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr12:1857200-1865800	Weak transcription	Primary B cells from cord blood	blood
50	chr12:1857200-1866400	Weak transcription	H1 Cell Line	embryonic stem cell

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