Variant report

Variant	rs73742535
Chromosome Location	chr6:28302925-28302926
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:33)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:33 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28109265..28112090-chr6:28302311..28305142,2	MCF-7	breast:
2	chr6:27775597..27780846-chr6:28300467..28304976,7	K562	blood:
3	chr6:28191649..28195458-chr6:28301378..28307708,9	K562	blood:
4	chr6:28099723..28110178-chr6:28301599..28306918,14	K562	blood:
5	chr6:27796630..27800125-chr6:28302655..28305022,3	K562	blood:
6	chr6:28247415..28251168-chr6:28301808..28306623,8	K562	blood:
7	chr6:27832606..27835088-chr6:28302807..28304572,2	K562	blood:
8	chr6:28293963..28296628-chr6:28301528..28305497,4	MCF-7	breast:
9	chr6:27832219..27835088-chr6:28302807..28305055,2	K562	blood:
10	chr6:27774293..27778194-chr6:28301096..28304976,3	K562	blood:
11	chr6:28109273..28111011-chr6:28302779..28305242,3	MCF-7	breast:
12	chr6:28218301..28221476-chr6:28302207..28305180,4	MCF-7	breast:
13	chr6:27798625..27800434-chr6:28302917..28305015,2	K562	blood:
14	chr6:28300850..28305636-chr6:28315212..28320749,12	MCF-7	breast:
15	chr6:28245880..28256877-chr6:28299741..28307557,21	K562	blood:
16	chr6:28234248..28238647-chr6:28302210..28305266,7	K562	blood:
17	chr6:28103055..28111556-chr6:28296771..28308203,17	K562	blood:
18	chr6:28233221..28238495-chr6:28301018..28307259,12	K562	blood:
19	chr6:27804731..27806517-chr6:28302178..28303810,2	MCF-7	breast:
20	chr6:28184981..28190782-chr6:28297491..28307222,23	K562	blood:
21	chr6:28182366..28191375-chr6:28300021..28306741,17	K562	blood:
22	chr6:28235909..28238714-chr6:28300665..28303049,3	MCF-7	breast:
23	chr6:28191609..28196785-chr6:28301378..28305522,8	K562	blood:
24	chr6:28302165..28304933-chr6:28366158..28368845,2	K562	blood:
25	chr6:28126892..28131515-chr6:28301205..28304944,6	K562	blood:
26	chr6:28232678..28234825-chr6:28301975..28304232,2	MCF-7	breast:
27	chr6:28285662..28290423-chr6:28300603..28305447,9	MCF-7	breast:
28	chr6:28218514..28221776-chr6:28301462..28305432,7	K562	blood:
29	chr6:28248171..28250694-chr6:28301952..28304469,4	MCF-7	breast:
30	chr6:27857690..27865363-chr6:28300493..28306970,14	K562	blood:
31	chr6:27802790..27806364-chr6:28301138..28304856,3	K562	blood:
32	chr6:28218514..28221956-chr6:28302143..28305192,6	K562	blood:
33	chr6:27857994..27864853-chr6:28300493..28305532,13	K562	blood:

No data

Variant related genes	Relation type
ENSG00000184348	Chromatin interaction
ENSG00000137338	Chromatin interaction
ENSG00000198374	Chromatin interaction
ENSG00000233224	Chromatin interaction
ENSG00000197062	Chromatin interaction
ENSG00000217862	Chromatin interaction
ENSG00000187626	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000261839	Chromatin interaction
ENSG00000196747	Chromatin interaction
ENSG00000269293	Chromatin interaction
ENSG00000185130	Chromatin interaction
ENSG00000233822	Chromatin interaction
ENSG00000203813	Chromatin interaction
ENSG00000238610	Chromatin interaction
ENSG00000176933	Chromatin interaction
ENSG00000137185	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000189298	Chromatin interaction
ENSG00000226314	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000270326	Chromatin interaction
ENSG00000197914	Chromatin interaction
ENSG00000158691	Chromatin interaction
ENSG00000198315	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10484542	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1416919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893917	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16893929	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16893973	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893975	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2077474	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2159275	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2281040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800324	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711167	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713159	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58019071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59598126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60568488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60698636	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs723475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs723476	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742539	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73742541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73742544	0.84[AFR][1000 genomes]
rs73742545	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs742107	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs758397	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[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:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28295400-28303000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:28295400-28303000	Weak transcription	Thymus	Thymus
3	chr6:28297000-28303400	Weak transcription	Gastric	stomach
4	chr6:28297200-28303000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:28297400-28303400	Weak transcription	Ovary	ovary
6	chr6:28297400-28303400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:28300800-28303000	Flanking Active TSS	K562	blood
8	chr6:28301600-28303400	Weak transcription	Lung	lung
9	chr6:28302200-28303000	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr6:28302200-28303000	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr6:28302200-28303000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:28302200-28303200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:28302200-28303200	Flanking Active TSS	Fetal Heart	heart
14	chr6:28302200-28305400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:28302400-28303000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr6:28302400-28303000	Enhancers	Primary hematopoietic stem cells	blood
17	chr6:28302400-28303000	Flanking Active TSS	Brain Angular Gyrus	brain
18	chr6:28302400-28303000	Enhancers	Brain Cingulate Gyrus	brain
19	chr6:28302400-28303000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:28302400-28303200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr6:28302400-28303200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
22	chr6:28302400-28303200	Flanking Active TSS	Fetal Lung	lung
23	chr6:28302400-28303200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
24	chr6:28302400-28303200	Flanking Active TSS	Rectal Smooth Muscle	rectum
25	chr6:28302400-28303200	Flanking Active TSS	HepG2	liver
26	chr6:28302400-28304400	Active TSS	HSMMtube	muscle
27	chr6:28302400-28305200	Active TSS	H9 Cell Line	embryonic stem cell
28	chr6:28302400-28305200	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr6:28302400-28305600	Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr6:28302600-28303000	Flanking Active TSS	H1 Cell Line	embryonic stem cell
31	chr6:28302600-28303000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
32	chr6:28302600-28303000	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr6:28302600-28303000	Flanking Active TSS	Hela-S3	cervix
34	chr6:28302600-28303200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr6:28302600-28303200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:28302600-28304200	Active TSS	Stomach Smooth Muscle	stomach
37	chr6:28302600-28304600	Active TSS	Colon Smooth Muscle	Colon
38	chr6:28302600-28305200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:28302600-28305200	Active TSS	HUES6 Cell Line	embryonic stem cell
40	chr6:28302800-28303000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:28302800-28303000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr6:28302800-28303000	Active TSS	iPS-15b Cell Line	embryonic stem cell
43	chr6:28302800-28303000	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr6:28302800-28303000	Enhancers	Primary B cells from peripheral blood	blood
45	chr6:28302800-28303000	Enhancers	Primary T cells fromperipheralblood	blood
46	chr6:28302800-28303000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr6:28302800-28303000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
48	chr6:28302800-28303000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr6:28302800-28303000	Enhancers	Primary T killer memory cells from peripheral blood	blood
50	chr6:28302800-28303000	Flanking Active TSS	Brain Germinal Matrix	brain

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