Variant report

Variant	rs7809359
Chromosome Location	chr7:66368455-66368456
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10156059	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10224189	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10224536	0.82[EUR][1000 genomes]
rs10225392	0.85[EUR][1000 genomes]
rs10226191	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10228964	0.83[ASN][1000 genomes]
rs10231411	0.86[EUR][1000 genomes]
rs10234322	0.88[EUR][1000 genomes]
rs10234640	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10235638	0.82[EUR][1000 genomes]
rs10240153	0.85[EUR][1000 genomes]
rs10240582	0.85[EUR][1000 genomes]
rs10241395	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10241528	0.83[EUR][1000 genomes]
rs10242870	0.86[EUR][1000 genomes]
rs10244459	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10245017	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10247324	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10247815	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10256117	0.84[EUR][1000 genomes]
rs10263993	0.81[EUR][1000 genomes]
rs10264433	0.83[ASN][1000 genomes]
rs10264555	0.83[ASN][1000 genomes]
rs10265069	0.88[EUR][1000 genomes]
rs10265154	0.84[EUR][1000 genomes]
rs10266792	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10267253	0.86[EUR][1000 genomes]
rs10270326	0.84[EUR][1000 genomes]
rs10280816	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10281090	0.90[EUR][1000 genomes]
rs1060527	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13437994	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17680708	0.82[ASN][1000 genomes]
rs17747927	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17748115	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17748222	0.81[ASN][1000 genomes]
rs2013707	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28375318	0.83[EUR][1000 genomes]
rs28379824	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28472679	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28501161	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28533332	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28547918	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28607736	0.82[EUR][1000 genomes]
rs28634091	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28641990	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28663128	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28675035	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28817095	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3778908	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3800814	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3800818	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57774708	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57875851	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59079543	0.84[EUR][1000 genomes]
rs59693594	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60026498	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67408913	0.86[EUR][1000 genomes]
rs6964080	0.84[EUR][1000 genomes]
rs6965680	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6973897	0.85[EUR][1000 genomes]
rs71526586	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73135905	0.84[EUR][1000 genomes]
rs73135907	0.84[EUR][1000 genomes]
rs73135909	0.84[EUR][1000 genomes]
rs73135917	0.84[EUR][1000 genomes]
rs73135922	0.84[EUR][1000 genomes]
rs73135925	0.84[EUR][1000 genomes]
rs73135950	0.86[EUR][1000 genomes]
rs73135960	0.85[EUR][1000 genomes]
rs73135973	0.83[EUR][1000 genomes]
rs73137960	0.84[EUR][1000 genomes]
rs73137963	0.83[EUR][1000 genomes]
rs73139976	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73141980	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73143921	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73143998	0.88[EUR][1000 genomes]
rs73145911	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73145924	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73151646	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73151663	0.81[ASN][1000 genomes]
rs73151665	0.84[ASN][1000 genomes]
rs7455757	0.86[EUR][1000 genomes]
rs7777631	0.88[EUR][1000 genomes]
rs7785883	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7796977	0.85[EUR][1000 genomes]
rs7809535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs868960	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026559	chr7:65617368-66370805	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats 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 miRNA target site	116 gene(s)	inside rSNPs	diseases
2	nsv888329	chr7:66234585-66376095	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7809359	GS1-124K5.12	cis	Adipose Subcutaneous	GTEx
rs7809359	GS1-124K5.12	cis	Artery Tibial	GTEx
rs7809359	GS1-124K5.12	cis	lung	GTEx

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:66311000-66385200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:66311200-66385200	Weak transcription	Brain Angular Gyrus	brain
3	chr7:66325400-66369400	Weak transcription	Fetal Brain Female	brain
4	chr7:66325600-66373000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr7:66326400-66371800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr7:66329800-66372000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr7:66331800-66378400	Weak transcription	A549	lung
8	chr7:66333000-66371600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr7:66333800-66371800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr7:66335400-66371400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr7:66336200-66369400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr7:66342800-66370600	Weak transcription	NHLF	lung
13	chr7:66347000-66370000	Weak transcription	Colonic Mucosa	Colon
14	chr7:66349800-66368800	Weak transcription	NHEK	skin
15	chr7:66350600-66385200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr7:66353200-66379600	Weak transcription	GM12878-XiMat	blood
17	chr7:66355200-66369000	Weak transcription	Left Ventricle	heart
18	chr7:66355600-66375400	Weak transcription	Fetal Brain Male	brain
19	chr7:66356400-66371200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr7:66358800-66371200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr7:66359200-66372800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr7:66361200-66370000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr7:66361200-66372600	Weak transcription	Osteobl	bone
24	chr7:66361400-66371000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr7:66361600-66369000	Strong transcription	Ovary	ovary
26	chr7:66361600-66370400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr7:66362600-66370200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr7:66362600-66371000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr7:66362600-66371200	Strong transcription	Fetal Intestine Small	intestine
30	chr7:66363000-66371800	Strong transcription	Fetal Stomach	stomach
31	chr7:66363200-66371200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr7:66363200-66373000	Weak transcription	Right Atrium	heart
33	chr7:66364000-66371000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr7:66364000-66375600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr7:66364400-66369400	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr7:66364400-66370400	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr7:66364400-66385400	Weak transcription	HSMMtube	muscle
38	chr7:66364600-66369000	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr7:66364600-66370200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr7:66364600-66371800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr7:66364600-66372600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr7:66364800-66369000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr7:66364800-66369600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr7:66364800-66371800	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr7:66364800-66372400	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr7:66364800-66378400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr7:66364800-66385000	Weak transcription	Brain Anterior Caudate	brain
48	chr7:66365000-66369200	Weak transcription	Dnd41	blood
49	chr7:66365000-66369400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr7:66365000-66373400	Weak transcription	Primary B cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links