Variant report

Variant	rs4669400
Chromosome Location	chr2:9747480-9747481
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:9746496..9749378-chr2:9771144..9772887,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10169269	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10210225	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10929590	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10929591	0.90[ASN][1000 genomes]
rs1111976	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11674769	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11674777	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11887863	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11890807	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11902264	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12692388	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13415136	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1524667	0.87[ASN][1000 genomes]
rs3791748	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3951115	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4668625	0.87[ASN][1000 genomes]
rs62119427	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6432018	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6432019	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6432020	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6432023	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6432024	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6706227	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6720625	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6734469	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6745213	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7556678	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7556757	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7558086	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7565646	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7569485	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7596929	0.86[AMR][1000 genomes];0.92[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	nsv580915	chr2:9308148-9844178	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9696800-9767600	Weak transcription	Gastric	stomach
2	chr2:9719200-9747800	Weak transcription	Lung	lung
3	chr2:9732400-9747600	Weak transcription	Placenta	Placenta
4	chr2:9734000-9748000	Weak transcription	Pancreas	Pancrea
5	chr2:9734600-9748000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr2:9735200-9748400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr2:9735400-9748000	Weak transcription	Aorta	Aorta
8	chr2:9735400-9748000	Weak transcription	Spleen	Spleen
9	chr2:9735600-9748400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:9735800-9747600	Weak transcription	Stomach Mucosa	stomach
11	chr2:9735800-9748200	Weak transcription	Ovary	ovary
12	chr2:9737000-9747800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr2:9737000-9748000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr2:9737200-9748000	Weak transcription	Small Intestine	intestine
15	chr2:9737400-9747600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr2:9737400-9747600	Weak transcription	Hela-S3	cervix
17	chr2:9737400-9747800	Weak transcription	Fetal Heart	heart
18	chr2:9739200-9747800	Weak transcription	Left Ventricle	heart
19	chr2:9739600-9747800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr2:9739800-9747600	Weak transcription	Right Ventricle	heart
21	chr2:9739800-9747800	Weak transcription	Psoas Muscle	Psoas
22	chr2:9740000-9747800	Weak transcription	Colonic Mucosa	Colon
23	chr2:9740200-9747600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr2:9740200-9748000	Weak transcription	Brain Hippocampus Middle	brain
25	chr2:9740200-9748400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr2:9740400-9747600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr2:9740400-9747600	Weak transcription	Brain Substantia Nigra	brain
28	chr2:9740400-9747800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr2:9740400-9747800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr2:9740400-9748000	Weak transcription	Brain Anterior Caudate	brain
31	chr2:9740400-9748000	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr2:9740400-9748400	Weak transcription	HSMMtube	muscle
33	chr2:9740600-9747600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr2:9740600-9747600	Weak transcription	Adipose Nuclei	Adipose
35	chr2:9740600-9747600	Weak transcription	Colon Smooth Muscle	Colon
36	chr2:9740600-9747600	Weak transcription	HUVEC	blood vessel
37	chr2:9740600-9747600	Weak transcription	NHLF	lung
38	chr2:9740600-9747800	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr2:9740600-9748000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr2:9740600-9748000	Weak transcription	Fetal Brain Male	brain
41	chr2:9741000-9747600	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr2:9741000-9747800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr2:9741000-9748000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr2:9741200-9747600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr2:9741200-9747600	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr2:9741200-9747600	Weak transcription	HMEC	breast
47	chr2:9741200-9747600	Weak transcription	NHEK	skin
48	chr2:9741200-9747800	Weak transcription	Brain Angular Gyrus	brain
49	chr2:9741200-9748000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr2:9741200-9748000	Weak transcription	Primary T cells from cord blood	blood

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