Variant report

Variant	rs9467787
Chromosome Location	chr6:26556769-26556770
allele	G/T
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:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 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	chr6:26554929..26556966-chr6:27111412..27114183,2	K562	blood:
6	chr6:26156800..26159038-chr6:26555880..26559769,3	K562	blood:
7	chr6:26554282..26558961-chr6:26593816..26597710,6	K562	blood:
8	chr6:26205624..26207427-chr6:26554125..26557107,2	MCF-7	breast:
9	chr6:26305449..26307916-chr6:26554674..26557106,2	K562	blood:
10	chr6:26179565..26181746-chr6:26554462..26557282,3	K562	blood:
11	chr6:26552134..26560768-chr6:26592842..26598560,12	K562	blood:
12	chr6:26551317..26553422-chr6:26555565..26558257,2	MCF-7	breast:
13	chr6:26215416..26220761-chr6:26552496..26557332,5	K562	blood:
14	chr6:26327903..26334280-chr6:26553526..26557732,8	K562	blood:
15	chr6:26553266..26555842-chr6:26556342..26558941,2	K562	blood:
16	chr6:26548378..26550170-chr6:26555408..26557476,2	K562	blood:
17	chr6:26271979..26274629-chr6:26555577..26558116,2	MCF-7	breast:
18	chr6:26187838..26190767-chr6:26553872..26556944,3	K562	blood:
19	chr6:26555381..26559031-chr6:26596237..26597753,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000146109	Chromatin interaction
ENSG00000168274	Chromatin interaction
ENSG00000188987	Chromatin interaction
ENSG00000168242	Chromatin interaction
ENSG00000218690	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000158373	Chromatin interaction
ENSG00000187990	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1001687	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10214634	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10223789	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10223792	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10484442	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1056347	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1056667	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1056668	0.82[EUR][1000 genomes]
rs1078679	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10946834	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs10946835	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs10946837	0.95[EUR][1000 genomes]
rs11752946	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11754138	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11756120	0.94[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12526680	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12663883	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12663894	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12665431	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1321479	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1321480	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1321481	0.96[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1321482	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1535276	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1535277	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1570059	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1570060	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1570061	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1884946	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs1884947	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1884948	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1884949	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1977201	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2208331	0.91[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2224380	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2255070	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2393669	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2393670	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs28558133	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35355150	0.87[EUR][1000 genomes]
rs3736781	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs3736782	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs3757151	0.89[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs4368798	0.81[AFR][1000 genomes]
rs4573	0.91[EUR][1000 genomes]
rs4713006	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4713008	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4871	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs55930917	0.92[EUR][1000 genomes]
rs6456733	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6456734	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6456735	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6903973	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6909277	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6910899	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6910930	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6913398	0.94[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs6913462	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6913877	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6918360	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6918506	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6918854	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6922824	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6924838	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6924865	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6925703	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6925783	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6925895	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6926629	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6930120	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6932156	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6932350	0.92[EUR][1000 genomes]
rs6932865	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs6933176	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs6940053	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6940188	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6941022	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs767471	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7753565	0.82[EUR][1000 genomes]
rs9295694	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9295695	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9295698	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295699	0.85[AMR][1000 genomes]
rs9357010	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9358952	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9358954	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9379887	0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9393729	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9393731	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9393732	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9461259	0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9461267	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9461270	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9461271	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9461272	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9461275	0.81[AFR][1000 genomes]
rs9467773	0.87[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9467774	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9467775	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9467776	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9467778	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9467779	0.96[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9467782	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9467783	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9467784	0.97[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9467791	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9467796	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9467797	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9467798	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9467799	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9467800	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9467802	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9467805	0.82[AFR][1000 genomes]
rs9986382	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9467787	ZNF322	cis	Nerve Tibial	GTEx
rs9467787	HMGN4	Cis_1M	lymphoblastoid	RTeQTL
rs9467787	HMGN4	cis	Whole Blood	GTEx
rs9467787	HCG11	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26552600-26556800	Active TSS	NHDF-Ad	bronchial
2	chr6:26552800-26557200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:26553000-26557000	Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr6:26553000-26557000	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr6:26553000-26557000	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr6:26553000-26557200	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr6:26553000-26557200	Active TSS	H1 Cell Line	embryonic stem cell
8	chr6:26553000-26557200	Active TSS	H9 Cell Line	embryonic stem cell
9	chr6:26553000-26557200	Active TSS	HUES64 Cell Line	embryonic stem cell
10	chr6:26553000-26557200	Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr6:26553000-26557200	Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr6:26553000-26557200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:26553000-26557200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:26553200-26556800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr6:26553200-26556800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:26553200-26556800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:26553200-26556800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:26553200-26556800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr6:26553200-26557000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:26553200-26557000	Active TSS	A549	lung
21	chr6:26553200-26557200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:26553600-26556800	Active TSS	Brain Substantia Nigra	brain
23	chr6:26555000-26556800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:26555200-26561800	Weak transcription	Aorta	Aorta
25	chr6:26555400-26557400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr6:26555400-26562000	Weak transcription	Pancreas	Pancrea
27	chr6:26555800-26557000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:26556000-26561400	Weak transcription	Right Atrium	heart
29	chr6:26556200-26556800	Enhancers	Adipose Nuclei	Adipose
30	chr6:26556200-26556800	Flanking Active TSS	Hela-S3	cervix
31	chr6:26556200-26557000	Enhancers	Fetal Stomach	stomach
32	chr6:26556200-26557400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:26556400-26557200	Enhancers	Spleen	Spleen
34	chr6:26556400-26557400	Flanking Active TSS	HepG2	liver
35	chr6:26556600-26556800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr6:26556600-26556800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:26556600-26556800	Active TSS	GM12878-XiMat	blood
38	chr6:26556600-26556800	Active TSS	HUVEC	blood vessel
39	chr6:26556600-26556800	Active TSS	NH-A	brain
40	chr6:26556600-26556800	Weak transcription	Osteobl	bone
41	chr6:26556600-26557000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:26556600-26557000	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr6:26556600-26557000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
44	chr6:26556600-26557000	Active TSS	K562	blood
45	chr6:26556600-26557200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:26556600-26557200	Weak transcription	HMEC	breast
47	chr6:26556600-26557400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:26556600-26557400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr6:26556600-26557400	Enhancers	NHEK	skin

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