Variant report

Variant	rs55983886
Chromosome Location	chr9:98771608-98771609
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98769174..98772045-chr9:98801807..98803378,2	MCF-7	breast:
2	chr9:98771457..98773496-chr9:98779706..98781574,2	K562	blood:
3	chr9:98770913..98773359-chr9:98780439..98781981,2	MCF-7	breast:
4	chr9:98770544..98772627-chr9:98774325..98776534,2	K562	blood:
5	chr9:98769873..98772707-chr9:98776705..98779078,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10512243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1410297	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16910291	0.90[AMR][1000 genomes]
rs16910302	0.98[AMR][1000 genomes]
rs16910370	1.00[AMR][1000 genomes]
rs16910376	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16910382	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17303045	0.88[AMR][1000 genomes]
rs17304942	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17305138	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305329	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17305917	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs17394582	0.90[AMR][1000 genomes]
rs17394881	0.98[AMR][1000 genomes]
rs17396240	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396338	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396553	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17396860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1972802	0.86[AMR][1000 genomes]
rs2149099	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2149100	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2176026	1.00[AMR][1000 genomes]
rs3802439	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4144585	1.00[AMR][1000 genomes]
rs55645821	0.84[EUR][1000 genomes]
rs55699149	0.90[AMR][1000 genomes]
rs55746108	0.90[AMR][1000 genomes]
rs55787215	0.87[EUR][1000 genomes]
rs55810950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55923424	0.90[AMR][1000 genomes]
rs55962207	0.83[AMR][1000 genomes]
rs56016781	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56108623	0.98[AMR][1000 genomes]
rs56162045	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56217203	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56225283	0.84[EUR][1000 genomes]
rs56379566	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56678652	1.00[AMR][1000 genomes]
rs62559011	0.90[AMR][1000 genomes]
rs62559012	0.90[AMR][1000 genomes]
rs62559013	0.90[AMR][1000 genomes]
rs62559025	0.90[AMR][1000 genomes]
rs62559027	0.90[AMR][1000 genomes]
rs62559029	0.93[AMR][1000 genomes]
rs62559030	0.93[AMR][1000 genomes]
rs62559031	0.93[AMR][1000 genomes]
rs62559053	0.98[AMR][1000 genomes]
rs62559054	1.00[AMR][1000 genomes]
rs62559055	1.00[AMR][1000 genomes]
rs62559057	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62559058	0.98[AMR][1000 genomes]
rs62559059	1.00[AMR][1000 genomes]
rs62559760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62559762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62559769	0.87[EUR][1000 genomes]
rs62559794	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs62559796	0.84[EUR][1000 genomes]
rs62562960	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562961	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62562966	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562967	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562970	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562979	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562980	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562981	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562982	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562985	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562986	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562989	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62562992	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73532684	0.82[AMR][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	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
2	chr9:98714000-98782600	Weak transcription	HUVEC	blood vessel
3	chr9:98734600-98782400	Weak transcription	NHEK	skin
4	chr9:98735400-98778400	Weak transcription	Hela-S3	cervix
5	chr9:98736600-98778800	Weak transcription	Fetal Brain Male	brain
6	chr9:98741800-98778600	Weak transcription	NH-A	brain
7	chr9:98747800-98782800	Weak transcription	Fetal Kidney	kidney
8	chr9:98748000-98782600	Weak transcription	HMEC	breast
9	chr9:98748400-98782800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr9:98748600-98781200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr9:98751600-98772600	Weak transcription	Small Intestine	intestine
12	chr9:98753400-98774200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:98753600-98774400	Weak transcription	Brain Anterior Caudate	brain
14	chr9:98759000-98780200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr9:98765000-98775200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr9:98765000-98777600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr9:98765800-98781600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr9:98766400-98779800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:98766400-98780800	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr9:98766600-98774600	Strong transcription	Primary B cells from peripheral blood	blood
21	chr9:98766600-98777400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:98766800-98773200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:98766800-98774000	Strong transcription	Rectal Mucosa Donor 29	rectum
24	chr9:98766800-98775400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr9:98766800-98776800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:98766800-98777000	Strong transcription	Fetal Muscle Leg	muscle
27	chr9:98766800-98777200	Strong transcription	Fetal Intestine Large	intestine
28	chr9:98767000-98774000	Strong transcription	Duodenum Mucosa	Duodenum
29	chr9:98767200-98773000	Strong transcription	Fetal Intestine Small	intestine
30	chr9:98767200-98774000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:98767600-98773800	Strong transcription	Fetal Muscle Trunk	muscle
32	chr9:98767600-98777400	Strong transcription	Primary B cells from cord blood	blood
33	chr9:98767800-98771800	Strong transcription	Ovary	ovary
34	chr9:98767800-98771800	Strong transcription	Rectal Smooth Muscle	rectum
35	chr9:98767800-98772200	Strong transcription	Brain Angular Gyrus	brain
36	chr9:98767800-98772200	Strong transcription	Spleen	Spleen
37	chr9:98767800-98772400	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr9:98767800-98773000	Strong transcription	Primary hematopoietic stem cells	blood
39	chr9:98767800-98773400	Strong transcription	Aorta	Aorta
40	chr9:98767800-98773600	Strong transcription	Adipose Nuclei	Adipose
41	chr9:98767800-98775200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:98768000-98771800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr9:98768000-98773800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr9:98768200-98772200	Genic enhancers	HSMM	muscle
45	chr9:98768200-98773800	Strong transcription	Cortex derived primary cultured neurospheres	brain
46	chr9:98768400-98772000	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr9:98768400-98772200	Enhancers	HSMMtube	muscle
48	chr9:98768400-98772600	Strong transcription	Brain Hippocampus Middle	brain
49	chr9:98768600-98782600	Weak transcription	Colon Smooth Muscle	Colon
50	chr9:98768800-98773000	Strong transcription	Brain Substantia Nigra	brain

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