Variant report

Variant	rs9909022
Chromosome Location	chr17:16153480-16153481
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 11 )

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

rs_ID	r²[population]
rs1029809	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10852834	0.94[EUR][1000 genomes]
rs11078337	0.88[EUR][1000 genomes]
rs11650427	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11650956	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11651578	0.89[EUR][1000 genomes]
rs11653500	0.81[EUR][1000 genomes]
rs11653650	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11654658	0.86[EUR][1000 genomes]
rs11656811	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11868284	0.87[EUR][1000 genomes]
rs12150564	0.92[EUR][1000 genomes]
rs12936233	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12936529	0.94[EUR][1000 genomes]
rs12938397	0.88[EUR][1000 genomes]
rs12938878	0.84[EUR][1000 genomes]
rs12939078	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12945855	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12946619	0.81[EUR][1000 genomes]
rs178789	0.83[AFR][1000 genomes]
rs178794	0.81[AFR][1000 genomes]
rs178799	0.82[AFR][1000 genomes]
rs1963811	0.88[EUR][1000 genomes]
rs2109262	0.89[EUR][1000 genomes]
rs2324306	0.84[EUR][1000 genomes]
rs2324307	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs34331598	0.81[EUR][1000 genomes]
rs3785622	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs3785625	0.88[EUR][1000 genomes]
rs3785626	0.89[EUR][1000 genomes]
rs4470185	0.81[EUR][1000 genomes]
rs4792728	0.89[EUR][1000 genomes]
rs4792729	0.88[EUR][1000 genomes]
rs4792731	0.87[EUR][1000 genomes]
rs62072527	0.81[EUR][1000 genomes]
rs62072528	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6502498	0.82[EUR][1000 genomes]
rs7210990	0.94[EUR][1000 genomes]
rs7215071	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7223428	0.81[EUR][1000 genomes]
rs8074727	0.87[EUR][1000 genomes]
rs9910148	0.94[EUR][1000 genomes]
rs9914734	0.89[EUR][1000 genomes]
rs9916220	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9944524	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
2	esv3330182	chr17:15652014-16569534	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
3	esv3446844	chr17:15654843-16572246	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
4	nsv1063459	chr17:15804228-16543593	Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
5	nsv907715	chr17:16019978-16206540	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
6	nsv907717	chr17:16076898-16239832	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
7	nsv528263	chr17:16097430-16196996	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	41 gene(s)	inside rSNPs	diseases
8	esv3326983	chr17:16138963-16210147	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs9909022	ADORA2B	cis	Thyroid	GTEx
rs9909022	ADORA2B	cis	Nerve Tibial	GTEx
rs9909022	ADORA2B	cis	Muscle Skeletal	GTEx
rs9909022	ADORA2B	cis	Artery Tibial	GTEx
rs9909022	NCOR1	Cis_1M	lymphoblastoid	RTeQTL
rs9909022	ZSWIM7	cis	Muscle Skeletal	GTEx
rs9909022	ADORA2B	cis	Esophagus Muscularis	GTEx
rs9909022	CENPV	cis	Artery Tibial	GTEx
rs9909022	ZSWIM7	Cis_1M	lymphoblastoid	RTeQTL
rs9909022	ADORA2B	cis	Adipose Subcutaneous	GTEx
rs9909022	TTC19	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16121000-16163200	Weak transcription	Spleen	Spleen
2	chr17:16121200-16157000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr17:16121200-16158800	Weak transcription	Left Ventricle	heart
4	chr17:16121200-16159800	Weak transcription	Lung	lung
5	chr17:16121200-16163000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr17:16121400-16158600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr17:16121400-16158800	Weak transcription	Fetal Muscle Leg	muscle
8	chr17:16121400-16159000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr17:16121400-16170600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr17:16121600-16158400	Weak transcription	Brain Hippocampus Middle	brain
11	chr17:16121600-16158600	Weak transcription	Brain Germinal Matrix	brain
12	chr17:16121800-16153600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr17:16121800-16158200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr17:16121800-16158400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr17:16121800-16163200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr17:16121800-16163200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr17:16122000-16163400	Weak transcription	Fetal Brain Female	brain
18	chr17:16123000-16154200	Weak transcription	Ovary	ovary
19	chr17:16124200-16158200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr17:16126200-16163200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr17:16126200-16163400	Weak transcription	Primary B cells from cord blood	blood
22	chr17:16126400-16158800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr17:16126600-16153800	Weak transcription	A549	lung
24	chr17:16127600-16158600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr17:16132200-16163200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr17:16132400-16163600	Weak transcription	HSMM	muscle
27	chr17:16133200-16153800	Weak transcription	Hela-S3	cervix
28	chr17:16133800-16163000	Weak transcription	Fetal Thymus	thymus
29	chr17:16133800-16176200	Weak transcription	NHEK	skin
30	chr17:16134000-16170600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr17:16134200-16162400	Weak transcription	Dnd41	blood
32	chr17:16134400-16163200	Weak transcription	Thymus	Thymus
33	chr17:16134800-16163200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr17:16135600-16158600	Weak transcription	Adipose Nuclei	Adipose
35	chr17:16138600-16163400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr17:16138600-16170200	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr17:16139000-16163400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr17:16139400-16163000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr17:16139600-16163400	Weak transcription	Primary B cells from peripheral blood	blood
40	chr17:16139800-16158200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr17:16140000-16170200	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr17:16140400-16156000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr17:16141400-16159000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr17:16143800-16158200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr17:16143800-16160600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr17:16144000-16163000	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr17:16144200-16158200	Weak transcription	Fetal Stomach	stomach
48	chr17:16147200-16153800	Weak transcription	Fetal Lung	lung
49	chr17:16147200-16158200	Weak transcription	NHLF	lung
50	chr17:16147400-16153800	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links