Variant report

Variant	rs73742555
Chromosome Location	chr6:28347713-28347714
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28342156..28344769-chr6:28347005..28349721,3	MCF-7	breast:
2	chr6:28336184..28339998-chr6:28343727..28348047,5	K562	blood:
3	chr6:28188391..28191172-chr6:28347437..28349201,2	K562	blood:
4	chr6:28346545..28348363-chr6:28349584..28351262,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1015690	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10484540	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10484541	0.81[EUR][1000 genomes]
rs1555046	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1555047	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1556957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894121	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17313059	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17313276	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17314224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17314865	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17314991	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17315340	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17315648	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17315739	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17316033	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17392982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17393066	0.81[EUR][1000 genomes]
rs17393342	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17393506	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17393786	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17393918	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17393939	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2027362	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2072318	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2072319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2232419	0.81[EUR][1000 genomes]
rs2232434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2232438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3734562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56001748	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56241479	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56787378	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57126418	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57204212	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57366176	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59732975	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60184496	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60660967	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6915122	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73740609	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73740620	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73740622	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73740623	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73742547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs758396	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7774788	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468378	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9717944	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 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	chr6:28318400-28350800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:28324400-28347800	Weak transcription	Fetal Brain Male	brain
3	chr6:28324400-28348200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr6:28324400-28357200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:28324400-28357600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:28324600-28349400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:28324600-28349600	Weak transcription	NHEK	skin
8	chr6:28324600-28358600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:28325400-28350800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:28332000-28350600	Weak transcription	Psoas Muscle	Psoas
11	chr6:28333800-28347800	Weak transcription	HUVEC	blood vessel
12	chr6:28333800-28348000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:28333800-28349800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:28333800-28349800	Weak transcription	Pancreas	Pancrea
15	chr6:28333800-28350800	Weak transcription	Lung	lung
16	chr6:28333800-28351000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:28334000-28348000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:28334000-28350000	Weak transcription	Rectal Smooth Muscle	rectum
19	chr6:28334000-28350600	Weak transcription	Colonic Mucosa	Colon
20	chr6:28334000-28350800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:28334200-28347800	Weak transcription	NHLF	lung
22	chr6:28334200-28348000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:28334200-28348000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr6:28334200-28348200	Weak transcription	Brain Substantia Nigra	brain
25	chr6:28334200-28348800	Weak transcription	Fetal Heart	heart
26	chr6:28334200-28349400	Weak transcription	Right Ventricle	heart
27	chr6:28334200-28349800	Weak transcription	Aorta	Aorta
28	chr6:28334200-28351000	Weak transcription	Gastric	stomach
29	chr6:28334200-28351200	Weak transcription	Spleen	Spleen
30	chr6:28334400-28347800	Weak transcription	Brain Angular Gyrus	brain
31	chr6:28334400-28347800	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:28334400-28348000	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:28334400-28348000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr6:28334400-28348000	Weak transcription	Thymus	Thymus
35	chr6:28334400-28348000	Weak transcription	HSMMtube	muscle
36	chr6:28334400-28350600	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:28334400-28351000	Weak transcription	Esophagus	oesophagus
38	chr6:28334600-28347800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:28334600-28347800	Weak transcription	A549	lung
40	chr6:28334600-28351000	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr6:28334800-28347800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:28334800-28347800	Weak transcription	Placenta	Placenta
43	chr6:28334800-28348000	Weak transcription	HepG2	liver
44	chr6:28335400-28347800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr6:28336200-28348000	Weak transcription	Adipose Nuclei	Adipose
46	chr6:28336600-28347800	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:28336600-28348000	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:28336600-28349200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:28336800-28348000	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr6:28337000-28347800	Weak transcription	Liver	Liver

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