Variant report

Variant	rs62441728
Chromosome Location	chr6:149801671-149801672
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149801342..149802873-chr6:149804387..149807166,3	MCF-7	breast:
2	chr6:149795286..149796796-chr6:149799603..149801991,2	MCF-7	breast:
3	chr6:149795137..149796969-chr6:149800706..149802832,2	K562	blood:

Variant related genes	Relation type
ENSG00000178199	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1001242	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1074495	0.89[EUR][1000 genomes]
rs1339185	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1934117	0.82[EUR][1000 genomes]
rs2007062	0.87[EUR][1000 genomes]
rs2153219	0.89[EUR][1000 genomes]
rs2789493	0.89[EUR][1000 genomes]
rs2789495	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2789496	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2789498	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2789501	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3765290	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs475681	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs512685	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs556775	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs587155	0.94[EUR][1000 genomes]
rs632360	0.89[EUR][1000 genomes]
rs634440	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs656461	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs664951	0.89[EUR][1000 genomes]
rs760897	0.89[EUR][1000 genomes]
rs805027	0.82[EUR][1000 genomes]
rs909793	0.88[EUR][1000 genomes]
rs9377218	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv1832313	chr6:149789511-149840750	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149776800-149802000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:149782200-149802000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:149783200-149802400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:149789400-149806000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:149790200-149802000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:149790400-149802200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:149792600-149803000	Weak transcription	Fetal Brain Female	brain
8	chr6:149793200-149801800	Weak transcription	Thymus	Thymus
9	chr6:149795000-149801800	Genic enhancers	Primary B cells from peripheral blood	blood
10	chr6:149795000-149802000	Weak transcription	Placenta	Placenta
11	chr6:149795200-149802800	Weak transcription	Right Atrium	heart
12	chr6:149795600-149801800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr6:149795600-149802800	Weak transcription	Fetal Intestine Small	intestine
14	chr6:149795800-149801800	Weak transcription	Lung	lung
15	chr6:149796000-149802000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:149796000-149803000	Weak transcription	Right Ventricle	heart
17	chr6:149796400-149802200	Weak transcription	Spleen	Spleen
18	chr6:149796600-149802000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:149796600-149802600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr6:149796600-149803400	Weak transcription	HepG2	liver
21	chr6:149797000-149802000	Weak transcription	Small Intestine	intestine
22	chr6:149799600-149803800	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
23	chr6:149799800-149802000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:149800000-149806000	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:149800200-149801800	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
26	chr6:149800200-149803000	Weak transcription	Esophagus	oesophagus
27	chr6:149800400-149802000	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr6:149800400-149805800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:149800600-149802000	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr6:149800600-149803200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:149800800-149803000	Weak transcription	Fetal Intestine Large	intestine
32	chr6:149800800-149803600	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:149801000-149803000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:149801000-149804400	Flanking Active TSS	GM12878-XiMat	blood
35	chr6:149801200-149802800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
36	chr6:149801200-149807000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
37	chr6:149801400-149801800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:149801400-149805600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
39	chr6:149801600-149802000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr6:149801600-149802200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:149801600-149802200	Enhancers	Monocytes-CD14+_RO01746	blood
42	chr6:149801600-149804200	Active TSS	Rectal Mucosa Donor 29	rectum
43	chr6:149801600-149807200	Flanking Active TSS	Primary B cells from cord blood	blood

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