Variant report

Variant	rs9888665
Chromosome Location	chr15:40273814-40273815
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12441486	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1436276	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1436278	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16970030	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16970033	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16970098	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16970132	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2196470	0.87[AMR][1000 genomes]
rs2307105	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2307106	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2307107	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2640645	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28369403	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28619481	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3765127	0.95[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4566130	0.93[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs472027	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs479500	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs503671	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs509200	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs510949	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs514152	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs518802	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs536503	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs548091	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7165105	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7170569	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7174767	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72729459	0.87[AMR][1000 genomes]
rs72729462	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72729469	0.85[AMR][1000 genomes]
rs72729490	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72729494	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8029465	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs8036381	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8036388	0.82[AMR][1000 genomes];0.84[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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40227400-40283400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:40228200-40323800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr15:40236600-40303000	Weak transcription	Small Intestine	intestine
4	chr15:40238000-40277800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr15:40249000-40304800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr15:40250000-40294800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr15:40250200-40299600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr15:40260800-40303400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:40261000-40277800	Weak transcription	A549	lung
10	chr15:40262600-40293800	Weak transcription	Stomach Mucosa	stomach
11	chr15:40266400-40281800	Weak transcription	K562	blood
12	chr15:40266600-40278000	Weak transcription	GM12878-XiMat	blood
13	chr15:40267000-40278000	Weak transcription	Hela-S3	cervix
14	chr15:40267800-40278400	Weak transcription	Primary B cells from cord blood	blood
15	chr15:40269000-40274600	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr15:40269000-40277800	Weak transcription	Aorta	Aorta
17	chr15:40269000-40277800	Weak transcription	Gastric	stomach
18	chr15:40269000-40277800	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr15:40269000-40278000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr15:40269000-40284800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr15:40269000-40293200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:40269000-40293200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr15:40269200-40274200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr15:40269200-40274600	Strong transcription	NHEK	skin
25	chr15:40269200-40275800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:40269200-40277800	Weak transcription	Ovary	ovary
27	chr15:40269200-40277800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr15:40269200-40277800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr15:40269200-40277800	Weak transcription	Thymus	Thymus
30	chr15:40269200-40278000	Weak transcription	Left Ventricle	heart
31	chr15:40269200-40278000	Weak transcription	Pancreas	Pancrea
32	chr15:40269200-40278000	Weak transcription	Right Ventricle	heart
33	chr15:40269200-40278200	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr15:40269200-40282000	Weak transcription	Esophagus	oesophagus
35	chr15:40269200-40283000	Weak transcription	Psoas Muscle	Psoas
36	chr15:40269400-40277800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr15:40269400-40277800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:40269400-40277800	Weak transcription	Spleen	Spleen
39	chr15:40269400-40278000	Weak transcription	Liver	Liver
40	chr15:40269400-40278000	Weak transcription	Brain Substantia Nigra	brain
41	chr15:40269400-40278000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr15:40269400-40281600	Weak transcription	Colonic Mucosa	Colon
43	chr15:40269400-40283000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr15:40269600-40277800	Weak transcription	Colon Smooth Muscle	Colon
45	chr15:40269600-40277800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr15:40269600-40277800	Weak transcription	Lung	lung
47	chr15:40269600-40277800	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr15:40269600-40278000	Weak transcription	Brain Germinal Matrix	brain
49	chr15:40269600-40278000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr15:40269600-40278000	Weak transcription	Fetal Kidney	kidney

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