Variant report

Variant	rs12573360
Chromosome Location	chr10:6211878-6211879
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6176060..6177647-chr10:6211821..6213802,2	MCF-7	breast:
2	chr10:6210751..6212790-chr10:6219914..6222242,2	K562	blood:
3	chr10:6202871..6212786-chr10:6240811..6248696,29	MCF-7	breast:
4	chr10:6211082..6212938-chr10:6217680..6219738,2	MCF-7	breast:
5	chr10:6209809..6221866-chr10:6241112..6247882,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170525	Chromatin interaction
ENSG00000213994	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12569573	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12569593	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12572456	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12573756	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12573767	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3814193	0.82[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3814194	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41295145	1.00[AFR][1000 genomes]
rs41295357	1.00[AFR][1000 genomes]
rs616159	1.00[MEX][hapmap];0.94[ASN][1000 genomes]
rs674399	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs72478269	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs72478270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv894817	chr10:6173416-6251252	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
7	nsv894818	chr10:6210740-6222819	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv894819	chr10:6210740-6226889	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv894820	chr10:6210740-6226889	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv894821	chr10:6210740-6228226	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv894822	chr10:6210740-6228226	Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6188400-6225200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:6206600-6220000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:6206800-6212600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr10:6206800-6213600	Weak transcription	HSMM	muscle
5	chr10:6207000-6212600	Weak transcription	NH-A	brain
6	chr10:6207000-6212800	Weak transcription	Osteobl	bone
7	chr10:6207000-6213400	Weak transcription	HSMMtube	muscle
8	chr10:6207000-6213800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr10:6207000-6213800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr10:6207000-6214000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr10:6207000-6214800	Weak transcription	Colonic Mucosa	Colon
12	chr10:6207000-6218600	Weak transcription	Fetal Lung	lung
13	chr10:6207000-6219000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr10:6207000-6219400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr10:6207000-6244400	Weak transcription	Hela-S3	cervix
16	chr10:6207200-6214200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr10:6207200-6217800	Weak transcription	HMEC	breast
18	chr10:6207200-6218800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:6207600-6212600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr10:6207600-6212600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr10:6207600-6213400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr10:6207600-6213600	Weak transcription	Brain Angular Gyrus	brain
23	chr10:6207600-6213600	Weak transcription	Brain Substantia Nigra	brain
24	chr10:6207600-6214200	Weak transcription	Brain Germinal Matrix	brain
25	chr10:6207600-6214600	Weak transcription	Primary hematopoietic stem cells	blood
26	chr10:6207600-6214800	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr10:6207600-6218600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr10:6207800-6212200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr10:6208200-6212400	Weak transcription	Placenta	Placenta
30	chr10:6208400-6212600	Weak transcription	Small Intestine	intestine
31	chr10:6208600-6213800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr10:6208800-6213400	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr10:6209000-6213800	Weak transcription	Lung	lung
34	chr10:6209000-6216400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr10:6209200-6212200	Weak transcription	Fetal Intestine Large	intestine
36	chr10:6209200-6212400	Weak transcription	Brain Anterior Caudate	brain
37	chr10:6209200-6214000	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr10:6209400-6214000	Weak transcription	Right Atrium	heart
39	chr10:6209400-6214000	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr10:6209400-6218200	Weak transcription	Fetal Brain Female	brain
41	chr10:6209400-6224400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr10:6209800-6217600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr10:6210000-6215000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr10:6210000-6215800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr10:6210200-6212000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr10:6210200-6212000	Enhancers	Spleen	Spleen
47	chr10:6210200-6212200	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr10:6210200-6212600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr10:6210200-6213600	Enhancers	Colon Smooth Muscle	Colon
50	chr10:6210200-6214000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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