Variant report

Variant	rs9877082
Chromosome Location	chr3:135751336-135751337
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10048942	0.84[ASN][1000 genomes]
rs10049233	0.84[ASN][1000 genomes]
rs10512981	0.93[ASN][1000 genomes]
rs10935175	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13072596	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082684	0.84[ASN][1000 genomes]
rs13097946	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098245	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13325914	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13434196	0.93[ASN][1000 genomes]
rs1403766	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1403770	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1523595	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1523596	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1523597	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1568349	0.93[ASN][1000 genomes]
rs16843509	0.93[ASN][1000 genomes]
rs17196987	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17197552	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17250445	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2204259	0.93[ASN][1000 genomes]
rs28449384	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28576629	0.84[ASN][1000 genomes]
rs34311570	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34409306	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34522617	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34767379	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35257855	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36039354	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4073308	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56807950	0.93[ASN][1000 genomes]
rs59063369	0.93[ASN][1000 genomes]
rs66544356	0.93[ASN][1000 genomes]
rs67039922	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771224	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771997	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773469	0.93[ASN][1000 genomes]
rs6774289	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6775778	0.84[ASN][1000 genomes]
rs6779603	0.93[ASN][1000 genomes]
rs6786769	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802139	0.93[ASN][1000 genomes]
rs6807058	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6807242	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807565	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6809006	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6810223	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71336046	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73222222	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7427833	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7433567	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7609938	0.93[ASN][1000 genomes]
rs7621331	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621396	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7621425	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7626676	0.93[ASN][1000 genomes]
rs7628848	0.84[ASN][1000 genomes]
rs7638129	0.93[ASN][1000 genomes]
rs7640153	0.93[ASN][1000 genomes]
rs7641070	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7643661	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289502	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289503	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9808979	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812561	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813082	0.93[ASN][1000 genomes]
rs9814557	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9819988	0.93[ASN][1000 genomes]
rs9824558	0.93[ASN][1000 genomes]
rs9825239	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9826806	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9829329	0.93[ASN][1000 genomes]
rs9829476	0.93[ASN][1000 genomes]
rs9833799	0.93[ASN][1000 genomes]
rs9834104	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9836374	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9836758	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9837355	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9839259	0.93[ASN][1000 genomes]
rs9842840	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9842864	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9843725	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9844478	0.93[ASN][1000 genomes]
rs9846137	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848322	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9849088	0.93[ASN][1000 genomes]
rs9851361	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9853577	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9862264	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862743	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9862763	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862777	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9864247	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9864514	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9864656	0.93[ASN][1000 genomes]
rs9868246	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872542	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875328	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876837	0.93[ASN][1000 genomes]
rs9880721	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv829732	chr3:135561706-135756840	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135718000-135753000	Weak transcription	Fetal Kidney	kidney
2	chr3:135721800-135763600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:135726400-135758400	Weak transcription	Lung	lung
4	chr3:135727400-135760600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:135727800-135769400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:135735800-135760600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:135738000-135758400	Weak transcription	Gastric	stomach
8	chr3:135738000-135761200	Weak transcription	Fetal Brain Male	brain
9	chr3:135738000-135775800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:135738400-135763600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr3:135738400-135763600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr3:135739800-135767800	Weak transcription	NHDF-Ad	bronchial
13	chr3:135741000-135763600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr3:135741800-135759800	Weak transcription	Placenta	Placenta
15	chr3:135742000-135763200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:135742000-135763600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:135742200-135763600	Weak transcription	Fetal Intestine Small	intestine
18	chr3:135742200-135763600	Weak transcription	NHEK	skin
19	chr3:135742800-135774200	Weak transcription	HMEC	breast
20	chr3:135743000-135755600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:135744200-135763600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr3:135745800-135755200	Weak transcription	Psoas Muscle	Psoas
23	chr3:135746200-135790000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:135746400-135763600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr3:135746600-135761000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr3:135747000-135757400	Weak transcription	Right Ventricle	heart
27	chr3:135747600-135756000	Weak transcription	HSMM	muscle
28	chr3:135747600-135760600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr3:135747800-135763600	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr3:135748400-135755200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:135748400-135755400	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr3:135748400-135757800	Weak transcription	Aorta	Aorta
33	chr3:135748400-135762400	Weak transcription	Brain Hippocampus Middle	brain
34	chr3:135748400-135763000	Weak transcription	NH-A	brain
35	chr3:135748400-135763200	Weak transcription	Fetal Intestine Large	intestine
36	chr3:135748400-135763200	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr3:135748400-135763400	Weak transcription	HSMMtube	muscle
38	chr3:135748400-135763600	Weak transcription	Colonic Mucosa	Colon
39	chr3:135748400-135763800	Weak transcription	NHLF	lung
40	chr3:135748600-135757400	Weak transcription	Adipose Nuclei	Adipose
41	chr3:135748600-135763000	Weak transcription	Colon Smooth Muscle	Colon
42	chr3:135748600-135763200	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr3:135748600-135763200	Weak transcription	Esophagus	oesophagus
44	chr3:135748800-135755400	Weak transcription	Fetal Heart	heart
45	chr3:135748800-135756200	Weak transcription	Osteobl	bone
46	chr3:135748800-135760200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr3:135749000-135757400	Weak transcription	Fetal Stomach	stomach
48	chr3:135749000-135759600	Weak transcription	Stomach Smooth Muscle	stomach
49	chr3:135749000-135763200	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr3:135749000-135763600	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links