Variant report

Variant	rs12356570
Chromosome Location	chr10:43953228-43953229
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:43901457..43906189-chr10:43948713..43953343,15	MCF-7	breast:
2	chr10:43930579..43934633-chr10:43949587..43954210,8	K562	blood:
3	chr10:43887055..43906178-chr10:43946385..43955803,85	K562	blood:

Variant related genes	Relation type
ENSG00000169813	Chromatin interaction
ENSG00000243660	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs11238518	1.00[ASN][1000 genomes]
rs11238519	1.00[ASN][1000 genomes]
rs11238520	1.00[ASN][1000 genomes]
rs11238531	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238533	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238547	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238570	1.00[ASN][1000 genomes]
rs11238591	1.00[ASN][1000 genomes]
rs11238605	1.00[ASN][1000 genomes]
rs12263722	1.00[ASN][1000 genomes]
rs12356024	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359520	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359825	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359980	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154006	1.00[ASN][1000 genomes]
rs17154012	1.00[ASN][1000 genomes]
rs17154020	1.00[ASN][1000 genomes]
rs17366560	1.00[ASN][1000 genomes]
rs17447133	1.00[ASN][1000 genomes]
rs17447468	1.00[ASN][1000 genomes]
rs17447580	1.00[ASN][1000 genomes]
rs41313824	1.00[ASN][1000 genomes]
rs4646975	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4948720	1.00[ASN][1000 genomes]
rs56120769	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57740712	1.00[ASN][1000 genomes]
rs59220072	1.00[ASN][1000 genomes]
rs60163354	1.00[ASN][1000 genomes]
rs61858993	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61858995	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61859001	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61859177	1.00[ASN][1000 genomes]
rs61859178	1.00[ASN][1000 genomes]
rs61859179	1.00[ASN][1000 genomes]
rs61859180	1.00[ASN][1000 genomes]
rs61859181	1.00[ASN][1000 genomes]
rs61859182	1.00[ASN][1000 genomes]
rs61859185	1.00[ASN][1000 genomes]
rs61859203	1.00[ASN][1000 genomes]
rs61859204	1.00[ASN][1000 genomes]
rs61859441	1.00[ASN][1000 genomes]
rs61859445	1.00[ASN][1000 genomes]
rs61859998	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61860007	1.00[ASN][1000 genomes]
rs61860889	1.00[ASN][1000 genomes]
rs67284218	1.00[ASN][1000 genomes]
rs7073767	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079012	1.00[ASN][1000 genomes]
rs7084706	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093434	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100846	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7900284	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7903467	1.00[ASN][1000 genomes]
rs7905073	1.00[ASN][1000 genomes]
rs7906169	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7906484	1.00[ASN][1000 genomes]
rs7913352	1.00[ASN][1000 genomes]
rs7916345	1.00[ASN][1000 genomes]
rs7920408	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][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	nsv895087	chr10:43783339-43982390	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv831842	chr10:43846541-43987501	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv895088	chr10:43871999-44003101	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv1043746	chr10:43940898-43977155	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43951800-43953600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr10:43951800-43953600	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:43951800-43953600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr10:43951800-43953600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr10:43951800-43953800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr10:43951800-43954000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:43951800-43957400	Weak transcription	Fetal Kidney	kidney
8	chr10:43952000-43953600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr10:43952000-43953600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr10:43952000-43953600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:43952000-43953600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:43952000-43953600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:43952000-43956400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:43952000-43957000	Weak transcription	K562	blood
15	chr10:43952000-43957200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr10:43952000-43957600	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr10:43952000-43957600	Weak transcription	Brain Anterior Caudate	brain
18	chr10:43952000-43957600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:43952000-43957600	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr10:43952000-43957600	Weak transcription	Hela-S3	cervix
21	chr10:43952000-43960000	Weak transcription	Left Ventricle	heart
22	chr10:43952000-43972600	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr10:43952000-43973200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr10:43952000-43977200	Weak transcription	HSMMtube	muscle
25	chr10:43952200-43953600	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr10:43952200-43956200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr10:43952200-43956800	Weak transcription	NHEK	skin
28	chr10:43952200-43957000	Weak transcription	Spleen	Spleen
29	chr10:43952200-43957200	Weak transcription	Fetal Intestine Small	intestine
30	chr10:43952200-43957400	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:43952200-43957400	Weak transcription	Brain Hippocampus Middle	brain
32	chr10:43952200-43957600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:43952200-43957600	Weak transcription	Adipose Nuclei	Adipose
34	chr10:43952200-43957600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr10:43952200-43957600	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr10:43952200-43961600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr10:43952200-43967800	Weak transcription	Right Atrium	heart
38	chr10:43952200-43975200	Weak transcription	Fetal Stomach	stomach
39	chr10:43952400-43956800	Weak transcription	HepG2	liver
40	chr10:43952400-43957200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr10:43952400-43976200	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr10:43952600-43953600	Weak transcription	Primary T cells from cord blood	blood
43	chr10:43952600-43954000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr10:43952600-43957200	Weak transcription	Primary B cells from peripheral blood	blood
45	chr10:43952600-43957200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr10:43952600-43957200	Weak transcription	Dnd41	blood
47	chr10:43952600-43957800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr10:43952600-43967400	Weak transcription	Fetal Muscle Leg	muscle
49	chr10:43952800-43953800	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr10:43952800-43957200	Weak transcription	Primary T cells fromperipheralblood	blood

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