Variant report

Variant	rs7036589
Chromosome Location	chr9:100657720-100657721
allele	A/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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100656718..100659594-chr9:100746334..100748192,2	MCF-7	breast:
2	chr9:100471544..100473232-chr9:100656611..100658428,2	K562	blood:
3	chr9:100657173..100659801-chr9:100665045..100666603,2	MCF-7	breast:
4	chr9:100472702..100473627-chr9:100657597..100658729,4	MCF-7	breast:
5	chr9:100648546..100652838-chr9:100654754..100658082,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf156-2	chr9:100655088-100658103	XLOC_007800

No data

Variant related genes	Relation type
ENSG00000136938	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1007506	0.80[CHB][hapmap];0.82[CHD][hapmap]
rs10113884	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10115216	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117642	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10119760	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10119853	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10120412	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10122541	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10123699	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10512255	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512256	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs1059003	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs10739526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759975	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10759981	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10760011	1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs10818175	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10818213	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10818241	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10984079	0.83[ASN][1000 genomes]
rs10984103	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10984134	0.83[ASN][1000 genomes]
rs10984156	0.83[ASN][1000 genomes]
rs10984195	0.86[CHB][hapmap];0.87[ASN][1000 genomes]
rs10984218	0.87[ASN][1000 genomes]
rs10984222	0.90[CHB][hapmap];0.87[ASN][1000 genomes]
rs10984230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10984235	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10984253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984311	0.88[CHB][hapmap]
rs10984377	1.00[YRI][hapmap]
rs10984424	0.82[CHB][hapmap]
rs10984516	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs10984532	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs10984545	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs12004762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12006522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12342417	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12343182	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12347191	0.81[EUR][1000 genomes]
rs12375612	1.00[YRI][hapmap]
rs12550872	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13286291	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13287360	0.96[CEU][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13299924	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1348387	1.00[YRI][hapmap]
rs1443434	0.89[CEU][hapmap];0.82[GIH][hapmap];0.85[MEX][hapmap]
rs1443435	0.89[CEU][hapmap];0.81[GIH][hapmap];0.81[MEX][hapmap]
rs1443436	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1561957	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1561961	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687621	1.00[YRI][hapmap]
rs1867278	0.85[CEU][hapmap];0.82[GIH][hapmap];0.85[MEX][hapmap]
rs1947015	1.00[YRI][hapmap]
rs1955143	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1955144	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1955145	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2120262	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2120264	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2282190	0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs2417575	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2417576	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28417086	0.87[ASN][1000 genomes]
rs28697997	0.87[ASN][1000 genomes]
rs28703314	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3021525	0.85[ASN][1000 genomes]
rs35324451	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3758249	0.89[CEU][hapmap]
rs3758250	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs3758251	0.89[CEU][hapmap]
rs3808893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3808895	0.90[CHB][hapmap]
rs3824495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4255258	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4460498	0.81[EUR][1000 genomes]
rs4743139	0.96[CEU][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4743142	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6478445	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6478469	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478471	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7022148	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7027221	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7032114	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7034249	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7034336	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7034648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7037175	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7037324	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7044121	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7044799	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7048255	1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753537	0.91[ASN][1000 genomes]
rs7851498	1.00[YRI][hapmap]
rs7854948	1.00[YRI][hapmap]
rs7860144	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7866436	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868534	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs894673	0.89[CEU][hapmap]
rs907577	0.89[CEU][hapmap];0.81[GIH][hapmap];0.85[MEX][hapmap]
rs907581	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs925487	0.96[CEU][hapmap];0.92[GIH][hapmap];0.86[MEX][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9299258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9775370	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs993501	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][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	nsv893611	chr9:100561055-100739888	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7036589	Hs.43687	cis	multi-tissue	Pritchard
rs7036589	C9orf156	cis	Temporal Cortex	GTEx
rs7036589	C9orf156	cis	cerebellum	SCAN
rs7036589	C9orf156	cis	Frontal Cortex	GTEx

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100637600-100658000	Weak transcription	Gastric	stomach
2	chr9:100652600-100659600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr9:100652600-100662400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr9:100652800-100660200	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr9:100652800-100662000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr9:100652800-100662000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr9:100652800-100666600	Weak transcription	Fetal Lung	lung
8	chr9:100653000-100657800	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr9:100653000-100658200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:100653000-100660200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr9:100653000-100660400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr9:100653000-100662600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr9:100653000-100663400	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr9:100653000-100667000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:100654200-100666600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:100654600-100662400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:100655800-100658000	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr9:100656000-100657800	Weak transcription	Brain Hippocampus Middle	brain
19	chr9:100656000-100658000	Weak transcription	Pancreas	Pancrea
20	chr9:100656000-100658200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr9:100656000-100658200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr9:100656000-100662400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr9:100656000-100662400	Weak transcription	Primary B cells from cord blood	blood
24	chr9:100656000-100662400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr9:100656000-100662400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr9:100656000-100662600	Weak transcription	Adipose Nuclei	Adipose
27	chr9:100656000-100667600	Weak transcription	Fetal Muscle Leg	muscle
28	chr9:100656000-100669400	Weak transcription	Brain Substantia Nigra	brain
29	chr9:100656200-100658200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr9:100656200-100661800	Weak transcription	Fetal Stomach	stomach
31	chr9:100656200-100662800	Weak transcription	HSMM	muscle
32	chr9:100656200-100665600	Weak transcription	Dnd41	blood
33	chr9:100656200-100666800	Weak transcription	Brain Germinal Matrix	brain
34	chr9:100656200-100670400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr9:100656400-100658000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr9:100656400-100658000	Weak transcription	Ovary	ovary
37	chr9:100656400-100668400	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr9:100656400-100669800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr9:100656400-100669800	Weak transcription	Fetal Brain Female	brain
40	chr9:100656600-100658000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr9:100656600-100659200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr9:100656600-100660200	Weak transcription	Thymus	Thymus
43	chr9:100656600-100662200	Weak transcription	Lung	lung
44	chr9:100656600-100663000	Weak transcription	Colon Smooth Muscle	Colon
45	chr9:100656600-100667000	Weak transcription	Brain Anterior Caudate	brain
46	chr9:100656800-100658000	Weak transcription	Primary B cells from peripheral blood	blood
47	chr9:100656800-100658000	Weak transcription	Spleen	Spleen
48	chr9:100656800-100659400	Weak transcription	Liver	Liver
49	chr9:100656800-100660200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr9:100656800-100666800	Weak transcription	Skeletal Muscle Female	skeletal muscle

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