Variant report

Variant	rs9920015
Chromosome Location	chr15:62326160-62326161
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs13329329	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13329639	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13379947	0.80[YRI][hapmap]
rs17238245	1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17238301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17303989	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs28367150	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28403096	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28408506	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28411845	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28440175	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28493143	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28517433	0.90[ASN][1000 genomes]
rs28541511	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28553330	0.84[AMR][1000 genomes]
rs28583709	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28613580	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28650099	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28654580	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28664955	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28692770	0.90[ASN][1000 genomes]
rs28708564	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28718088	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28720854	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28721460	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28758709	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28783433	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28810829	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28814609	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3784631	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4774423	0.88[EUR][1000 genomes]
rs57422239	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60540251	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs725174	0.92[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.85[TSI][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73414700	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416527	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416547	0.90[ASN][1000 genomes]
rs73430416	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8027343	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040911	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8042267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9920006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9920256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9920390	0.88[AFR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9920581	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521334	chr15:62129809-62340126	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv527451	chr15:62129809-62340126	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv904287	chr15:62146598-62338797	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv904288	chr15:62146598-62356386	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv516639	chr15:62175134-62340126	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904290	chr15:62175134-62356386	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv904293	chr15:62178695-62338797	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904294	chr15:62178695-62356386	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv457176	chr15:62178695-62519658	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
10	nsv569643	chr15:62178695-62519658	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
11	nsv471247	chr15:62202481-62519658	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
12	nsv569646	chr15:62202482-62519658	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
13	nsv904298	chr15:62218689-62338797	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
14	nsv569648	chr15:62239697-62340126	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
15	nsv1044748	chr15:62276183-62521856	Active TSS Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
16	nsv542405	chr15:62276183-62521856	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62185600-62333600	Weak transcription	Right Ventricle	heart
2	chr15:62221400-62327600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:62244600-62350400	Weak transcription	Small Intestine	intestine
4	chr15:62259400-62327200	Weak transcription	HepG2	liver
5	chr15:62265600-62338200	Weak transcription	Stomach Mucosa	stomach
6	chr15:62276400-62326800	Weak transcription	Thymus	Thymus
7	chr15:62276400-62345000	Weak transcription	Colon Smooth Muscle	Colon
8	chr15:62276600-62327600	Weak transcription	NHLF	lung
9	chr15:62282200-62327800	Weak transcription	Colonic Mucosa	Colon
10	chr15:62288600-62327600	Weak transcription	HMEC	breast
11	chr15:62288600-62336600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr15:62300000-62327600	Weak transcription	Hela-S3	cervix
13	chr15:62300000-62327800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:62300000-62334600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr15:62300200-62327600	Weak transcription	NH-A	brain
16	chr15:62300400-62351400	Weak transcription	Fetal Muscle Leg	muscle
17	chr15:62300600-62327600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:62300600-62327600	Weak transcription	Brain Angular Gyrus	brain
19	chr15:62300600-62327600	Weak transcription	Brain Hippocampus Middle	brain
20	chr15:62300600-62330600	Weak transcription	Aorta	Aorta
21	chr15:62300600-62330600	Weak transcription	Fetal Intestine Small	intestine
22	chr15:62300600-62337600	Weak transcription	Fetal Stomach	stomach
23	chr15:62300600-62342400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr15:62300600-62345800	Weak transcription	Gastric	stomach
25	chr15:62300600-62351800	Weak transcription	Lung	lung
26	chr15:62300800-62327600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr15:62300800-62351600	Weak transcription	Fetal Muscle Trunk	muscle
28	chr15:62301400-62327600	Weak transcription	Osteobl	bone
29	chr15:62301600-62334400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr15:62301600-62336000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr15:62302200-62351600	Weak transcription	Fetal Thymus	thymus
32	chr15:62302200-62351600	Weak transcription	Ovary	ovary
33	chr15:62302400-62336200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr15:62302800-62333200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr15:62305800-62327200	Weak transcription	HUVEC	blood vessel
36	chr15:62306200-62343600	Weak transcription	Stomach Smooth Muscle	stomach
37	chr15:62307000-62327600	Weak transcription	Brain Substantia Nigra	brain
38	chr15:62312000-62328200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:62313200-62327400	Weak transcription	NHEK	skin
40	chr15:62313400-62327600	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:62313400-62327600	Weak transcription	A549	lung
42	chr15:62313400-62327800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr15:62313400-62335400	Weak transcription	Fetal Kidney	kidney
44	chr15:62313400-62337000	Weak transcription	Placenta	Placenta
45	chr15:62313400-62342800	Weak transcription	Left Ventricle	heart
46	chr15:62313400-62345600	Weak transcription	Brain Anterior Caudate	brain
47	chr15:62313600-62332600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr15:62314800-62338000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr15:62315000-62330400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr15:62315200-62326200	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links