Variant report

Variant	rs62574035
Chromosome Location	chr9:100657374-100657375
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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	chr9:100648546..100652838-chr9:100654754..100658082,3	K562	blood:

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

Variant related genes	Relation type
ENSG00000136938	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10984193	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984297	0.88[EUR][1000 genomes]
rs10984349	0.83[EUR][1000 genomes]
rs10984375	0.82[AMR][1000 genomes]
rs10984462	0.83[EUR][1000 genomes]
rs1127703	0.85[EUR][1000 genomes]
rs12235434	0.85[EUR][1000 genomes]
rs12236440	0.85[EUR][1000 genomes]
rs12237296	0.85[EUR][1000 genomes]
rs17346310	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780416	0.86[EUR][1000 genomes]
rs3780417	0.81[EUR][1000 genomes]
rs3780418	0.83[EUR][1000 genomes]
rs3780419	0.81[EUR][1000 genomes]
rs4560904	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62574034	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67500034	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67975003	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs68112593	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7040232	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72753548	0.87[EUR][1000 genomes]
rs72753572	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7855917	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7864655	0.83[EUR][1000 genomes]
rs7870125	0.86[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	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

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100637600-100658000	Weak transcription	Gastric	stomach
2	chr9:100652400-100657400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr9:100652600-100659600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr9:100652600-100662400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr9:100652800-100657400	Weak transcription	Primary T cells from cord blood	blood
6	chr9:100652800-100660200	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr9:100652800-100662000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr9:100652800-100662000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr9:100652800-100666600	Weak transcription	Fetal Lung	lung
10	chr9:100653000-100657800	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr9:100653000-100658200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:100653000-100660200	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr9:100653000-100660400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr9:100653000-100662600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr9:100653000-100663400	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr9:100653000-100667000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:100654200-100666600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:100654600-100662400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:100655800-100657400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr9:100655800-100658000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr9:100656000-100657800	Weak transcription	Brain Hippocampus Middle	brain
22	chr9:100656000-100658000	Weak transcription	Pancreas	Pancrea
23	chr9:100656000-100658200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr9:100656000-100658200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr9:100656000-100662400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:100656000-100662400	Weak transcription	Primary B cells from cord blood	blood
27	chr9:100656000-100662400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr9:100656000-100662400	Weak transcription	Duodenum Mucosa	Duodenum
29	chr9:100656000-100662600	Weak transcription	Adipose Nuclei	Adipose
30	chr9:100656000-100667600	Weak transcription	Fetal Muscle Leg	muscle
31	chr9:100656000-100669400	Weak transcription	Brain Substantia Nigra	brain
32	chr9:100656200-100657400	Weak transcription	Brain Angular Gyrus	brain
33	chr9:100656200-100657600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr9:100656200-100658200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr9:100656200-100661800	Weak transcription	Fetal Stomach	stomach
36	chr9:100656200-100662800	Weak transcription	HSMM	muscle
37	chr9:100656200-100665600	Weak transcription	Dnd41	blood
38	chr9:100656200-100666800	Weak transcription	Brain Germinal Matrix	brain
39	chr9:100656200-100670400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr9:100656400-100658000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:100656400-100658000	Weak transcription	Ovary	ovary
42	chr9:100656400-100668400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr9:100656400-100669800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr9:100656400-100669800	Weak transcription	Fetal Brain Female	brain
45	chr9:100656600-100658000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:100656600-100659200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr9:100656600-100660200	Weak transcription	Thymus	Thymus
48	chr9:100656600-100662200	Weak transcription	Lung	lung
49	chr9:100656600-100663000	Weak transcription	Colon Smooth Muscle	Colon
50	chr9:100656600-100667000	Weak transcription	Brain Anterior Caudate	brain

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