Variant report

Variant	rs9467788
Chromosome Location	chr6:26557121-26557122
allele	C/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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:26537344..26540066-chr6:26554422..26557839,4	MCF-7	breast:
2	chr6:26329309..26333130-chr6:26553526..26558565,5	K562	blood:
3	chr6:26550749..26553522-chr6:26553841..26558660,4	K562	blood:
4	chr6:26318833..26321012-chr6:26555441..26558176,2	K562	blood:
5	chr6:26156800..26159038-chr6:26555880..26559769,3	K562	blood:
6	chr6:26554282..26558961-chr6:26593816..26597710,6	K562	blood:
7	chr6:26179565..26181746-chr6:26554462..26557282,3	K562	blood:
8	chr6:26552134..26560768-chr6:26592842..26598560,12	K562	blood:
9	chr6:26557116..26558715-chr6:26563470..26565467,2	MCF-7	breast:
10	chr6:26551317..26553422-chr6:26555565..26558257,2	MCF-7	breast:
11	chr6:26215416..26220761-chr6:26552496..26557332,5	K562	blood:
12	chr6:26327903..26334280-chr6:26553526..26557732,8	K562	blood:
13	chr6:26553266..26555842-chr6:26556342..26558941,2	K562	blood:
14	chr6:26548378..26550170-chr6:26555408..26557476,2	K562	blood:
15	chr6:26203076..26205536-chr6:26556903..26559679,2	K562	blood:
16	chr6:26271979..26274629-chr6:26555577..26558116,2	MCF-7	breast:
17	chr6:26555381..26559031-chr6:26596237..26597753,3	MCF-7	breast:
18	chr6:26326957..26329789-chr6:26556896..26559619,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000187990	Chromatin interaction
ENSG00000146109	Chromatin interaction
ENSG00000168242	Chromatin interaction
ENSG00000168274	Chromatin interaction
ENSG00000198518	Chromatin interaction
ENSG00000158373	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000218690	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1021372	0.83[YRI][hapmap]
rs1027204	0.82[YRI][hapmap]
rs10484442	0.85[YRI][hapmap]
rs1056667	0.89[YRI][hapmap]
rs1078679	0.86[YRI][hapmap]
rs10946834	0.90[YRI][hapmap]
rs10946835	0.89[YRI][hapmap]
rs1131936	1.00[JPT][hapmap]
rs12208788	1.00[JPT][hapmap]
rs1321479	0.89[YRI][hapmap]
rs1321481	0.96[YRI][hapmap]
rs1321482	0.86[YRI][hapmap]
rs13437351	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13978	1.00[JPT][hapmap]
rs1535276	0.85[YRI][hapmap]
rs1570060	0.87[YRI][hapmap]
rs1570061	0.86[YRI][hapmap]
rs16891666	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs1884946	0.90[YRI][hapmap]
rs2224380	0.85[YRI][hapmap]
rs2255070	0.86[YRI][hapmap]
rs2281027	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2393670	0.89[YRI][hapmap]
rs2451741	0.82[YRI][hapmap]
rs2494692	0.83[YRI][hapmap]
rs2494701	0.82[YRI][hapmap]
rs2498380	0.82[YRI][hapmap]
rs2504566	0.80[YRI][hapmap]
rs2504599	0.86[YRI][hapmap]
rs3734541	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3736781	0.85[YRI][hapmap]
rs3736782	0.85[YRI][hapmap]
rs3757141	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3757147	0.85[JPT][hapmap]
rs3800303	0.82[YRI][hapmap]
rs3846841	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs3846842	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3857549	1.00[JPT][hapmap]
rs4712986	1.00[JPT][hapmap]
rs4713006	0.90[YRI][hapmap]
rs4713008	0.90[YRI][hapmap]
rs4871	0.89[YRI][hapmap]
rs6456720	1.00[JPT][hapmap]
rs6456725	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6456726	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6456733	0.82[YRI][hapmap]
rs6456735	0.82[YRI][hapmap]
rs6901118	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6902081	1.00[JPT][hapmap]
rs6903973	0.85[YRI][hapmap]
rs6907857	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6910849	1.00[JPT][hapmap]
rs6910871	1.00[JPT][hapmap]
rs6910921	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6910993	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6911470	1.00[JPT][hapmap]
rs6911476	1.00[JPT][hapmap]
rs6918360	0.83[YRI][hapmap]
rs6918506	0.87[YRI][hapmap]
rs6918854	0.86[YRI][hapmap]
rs6922824	0.82[YRI][hapmap]
rs6924865	0.89[YRI][hapmap]
rs6925895	0.86[YRI][hapmap]
rs6926629	0.81[YRI][hapmap]
rs6929846	1.00[JPT][hapmap]
rs6933176	0.90[YRI][hapmap]
rs6941022	0.85[YRI][hapmap]
rs7355	1.00[JPT][hapmap]
rs7356849	1.00[JPT][hapmap]
rs7356982	0.85[JPT][hapmap]
rs767471	0.85[YRI][hapmap]
rs7751645	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7753565	0.90[YRI][hapmap]
rs7769926	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7773913	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9104	1.00[JPT][hapmap]
rs9295692	1.00[JPT][hapmap]
rs9295695	0.89[YRI][hapmap]
rs9295700	1.00[JPT][hapmap]
rs9357010	0.89[YRI][hapmap]
rs9393729	0.89[YRI][hapmap]
rs9461252	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9461253	1.00[JPT][hapmap]
rs9461254	1.00[JPT][hapmap]
rs9461270	0.89[YRI][hapmap]
rs9461271	0.89[YRI][hapmap]
rs9461272	0.83[YRI][hapmap]
rs9467748	0.85[JPT][hapmap]
rs9467753	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs9467757	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467759	1.00[JPT][hapmap]
rs9467760	0.85[JPT][hapmap]
rs9467761	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467768	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467771	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467773	0.92[YRI][hapmap]
rs9467774	0.90[YRI][hapmap]
rs9467779	0.89[YRI][hapmap]
rs9467782	0.89[YRI][hapmap]
rs9467783	0.89[YRI][hapmap]
rs9467791	0.89[YRI][hapmap]
rs9467798	0.87[YRI][hapmap]
rs9467800	0.87[YRI][hapmap]
rs9467803	1.00[JPT][hapmap]
rs9986382	0.89[YRI][hapmap]

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	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26552800-26557200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:26553000-26557200	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:26553000-26557200	Active TSS	H1 Cell Line	embryonic stem cell
4	chr6:26553000-26557200	Active TSS	H9 Cell Line	embryonic stem cell
5	chr6:26553000-26557200	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chr6:26553000-26557200	Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr6:26553000-26557200	Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr6:26553000-26557200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:26553000-26557200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:26553200-26557200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:26555200-26561800	Weak transcription	Aorta	Aorta
12	chr6:26555400-26557400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:26555400-26562000	Weak transcription	Pancreas	Pancrea
14	chr6:26556000-26561400	Weak transcription	Right Atrium	heart
15	chr6:26556200-26557400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:26556400-26557200	Enhancers	Spleen	Spleen
17	chr6:26556400-26557400	Flanking Active TSS	HepG2	liver
18	chr6:26556600-26557200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:26556600-26557200	Weak transcription	HMEC	breast
20	chr6:26556600-26557400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:26556600-26557400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr6:26556600-26557400	Enhancers	NHEK	skin
23	chr6:26556800-26557200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr6:26556800-26557200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr6:26556800-26557200	Active TSS	Hela-S3	cervix
26	chr6:26556800-26557200	Enhancers	Osteobl	bone
27	chr6:26556800-26557400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:26556800-26557400	Enhancers	NH-A	brain
29	chr6:26556800-26561600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr6:26557000-26557200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr6:26557000-26557200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr6:26557000-26557400	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr6:26557000-26557600	Flanking Active TSS	A549	lung
34	chr6:26557000-26557600	Flanking Active TSS	K562	blood

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