Variant report

Variant	rs60695945
Chromosome Location	chr10:28587922-28587923
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28563819..28566589-chr10:28585546..28588280,2	MCF-7	breast:
2	chr10:28580079..28588330-chr10:28588541..28593496,9	MCF-7	breast:
3	chr10:28580424..28583414-chr10:28585033..28588040,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10508730	0.90[EUR][1000 genomes]
rs12268225	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12412297	0.90[EUR][1000 genomes]
rs17831032	0.81[EUR][1000 genomes]
rs17831062	0.81[EUR][1000 genomes]
rs41306320	0.90[EUR][1000 genomes]
rs57170335	1.00[EUR][1000 genomes]
rs57575764	0.90[EUR][1000 genomes]
rs57960262	0.83[EUR][1000 genomes]
rs58270577	0.90[EUR][1000 genomes]
rs58760717	1.00[EUR][1000 genomes]
rs59048411	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60301798	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60563943	0.81[EUR][1000 genomes]
rs60629234	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61702002	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7070461	0.90[AFR][1000 genomes]
rs7072729	1.00[AMR][1000 genomes]
rs7090142	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7094411	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7094899	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606064	0.90[EUR][1000 genomes]
rs73606068	0.81[EUR][1000 genomes]
rs73606069	0.81[EUR][1000 genomes]
rs73608077	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7911943	0.90[AFR][1000 genomes]
rs7915875	0.90[AFR][1000 genomes]
rs7924121	0.81[AFR][1000 genomes];1.00[AMR][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	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS 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	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS 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
4	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28579000-28588400	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr10:28580000-28590400	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr10:28580600-28591000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:28581200-28590200	Weak transcription	Fetal Heart	heart
5	chr10:28581800-28590600	Weak transcription	HMEC	breast
6	chr10:28582200-28590800	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr10:28582400-28590600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:28583000-28589000	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr10:28583000-28590600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr10:28583200-28590800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr10:28584000-28588000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr10:28584200-28589400	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr10:28584400-28590600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr10:28584800-28591000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr10:28585000-28590600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr10:28585200-28590200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr10:28585200-28590400	Weak transcription	Aorta	Aorta
18	chr10:28585400-28590400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr10:28585400-28590600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr10:28585400-28590600	Weak transcription	Psoas Muscle	Psoas
21	chr10:28585400-28590800	Weak transcription	Adipose Nuclei	Adipose
22	chr10:28585600-28590400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:28585600-28590400	Weak transcription	Fetal Intestine Large	intestine
24	chr10:28585600-28590400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr10:28585600-28590600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr10:28585600-28590600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr10:28585600-28590600	Weak transcription	Fetal Intestine Small	intestine
28	chr10:28585600-28590600	Weak transcription	Stomach Mucosa	stomach
29	chr10:28585600-28590800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr10:28585600-28590800	Weak transcription	Fetal Stomach	stomach
31	chr10:28585600-28591000	Weak transcription	HSMMtube	muscle
32	chr10:28585800-28589200	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr10:28586000-28590600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr10:28586200-28589000	Weak transcription	HepG2	liver
35	chr10:28586200-28589800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr10:28586200-28590000	Weak transcription	Colon Smooth Muscle	Colon
37	chr10:28586200-28590400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr10:28586400-28589200	Weak transcription	Primary T cells from cord blood	blood
39	chr10:28586800-28590400	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr10:28586800-28590600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
41	chr10:28587400-28588600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr10:28587400-28590800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr10:28587600-28588000	Enhancers	Duodenum Mucosa	Duodenum
44	chr10:28587600-28588000	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr10:28587600-28589400	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr10:28587800-28588200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
47	chr10:28587800-28588200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
48	chr10:28587800-28588400	Enhancers	Small Intestine	intestine

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