Variant report

Variant	rs12411672
Chromosome Location	chr10:27520281-27520282
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:27519329..27521488-chr10:27529432..27532187,2	MCF-7	breast:
2	chr10:27518617..27521324-chr10:27527252..27530128,4	K562	blood:
3	chr10:27519175..27520963-chr10:27527252..27529084,2	K562	blood:

Variant related genes	Relation type
ENSG00000107897	Chromatin interaction
ENSG00000262412	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10829217	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs11015619	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11015620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11015624	0.81[AFR][1000 genomes]
rs11812283	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs11812740	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs12264871	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12411593	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12571272	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12571873	0.82[ASN][1000 genomes]
rs12572325	0.82[ASN][1000 genomes]
rs16916444	0.81[AMR][1000 genomes]
rs2027538	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs2368220	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3818969	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4747590	0.82[AMR][1000 genomes]
rs4747592	0.81[AMR][1000 genomes]
rs4747594	0.84[AMR][1000 genomes]
rs56352097	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73598046	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73598048	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7900533	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7918793	0.81[AMR][1000 genomes]
rs7919198	0.81[AMR][1000 genomes]
rs7919807	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7920681	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422253	chr10:27431366-27575370	Strong transcription Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3337781	chr10:27472216-27666703	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv894980	chr10:27477285-27526531	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27473200-27524200	Weak transcription	Stomach Mucosa	stomach
2	chr10:27475600-27528600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:27476200-27528600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr10:27481600-27527800	Weak transcription	Psoas Muscle	Psoas
5	chr10:27488600-27528600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr10:27491800-27527800	Weak transcription	Fetal Brain Male	brain
7	chr10:27494800-27528200	Weak transcription	K562	blood
8	chr10:27500000-27528000	Weak transcription	NHLF	lung
9	chr10:27500000-27528400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr10:27500800-27528000	Weak transcription	HMEC	breast
11	chr10:27501000-27528000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:27503200-27528200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr10:27504000-27528200	Weak transcription	Brain Substantia Nigra	brain
14	chr10:27505200-27527800	Weak transcription	Right Ventricle	heart
15	chr10:27505600-27528000	Weak transcription	NHEK	skin
16	chr10:27508400-27528400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr10:27508600-27527800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr10:27508600-27527800	Weak transcription	Colonic Mucosa	Colon
19	chr10:27508600-27529000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr10:27508800-27522000	Weak transcription	Lung	lung
21	chr10:27508800-27523400	Weak transcription	HepG2	liver
22	chr10:27508800-27527800	Weak transcription	Pancreas	Pancrea
23	chr10:27508800-27527800	Weak transcription	Spleen	Spleen
24	chr10:27508800-27528000	Weak transcription	Brain Germinal Matrix	brain
25	chr10:27508800-27528600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:27508800-27528600	Weak transcription	Esophagus	oesophagus
27	chr10:27508800-27528600	Weak transcription	Thymus	Thymus
28	chr10:27508800-27528600	Weak transcription	HSMMtube	muscle
29	chr10:27508800-27528800	Weak transcription	Aorta	Aorta
30	chr10:27508800-27529000	Weak transcription	Small Intestine	intestine
31	chr10:27509400-27522400	Weak transcription	Ovary	ovary
32	chr10:27509600-27524000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr10:27509600-27526000	Weak transcription	Fetal Heart	heart
34	chr10:27511200-27522000	Weak transcription	GM12878-XiMat	blood
35	chr10:27511200-27528200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr10:27511800-27527200	Weak transcription	Brain Angular Gyrus	brain
37	chr10:27511800-27527800	Weak transcription	Primary hematopoietic stem cells	blood
38	chr10:27511800-27528200	Weak transcription	Fetal Kidney	kidney
39	chr10:27512200-27520400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr10:27512200-27527800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr10:27512200-27527800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr10:27512200-27528000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr10:27512200-27528200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr10:27512200-27528200	Weak transcription	Osteobl	bone
45	chr10:27512400-27522200	Weak transcription	Hela-S3	cervix
46	chr10:27512400-27528200	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr10:27512400-27528200	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr10:27513600-27521000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr10:27514000-27524400	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr10:27514400-27524200	Strong transcription	Primary monocytes fromperipheralblood	blood

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