Variant report

Variant	rs62542709
Chromosome Location	chr9:27079172-27079173
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10967707	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12351696	0.81[EUR][1000 genomes]
rs2152063	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28525632	0.81[ASN][1000 genomes]
rs3120110	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3861013	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3861014	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3861015	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs596427	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs615532	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62542711	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62542712	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs637957	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517269	chr9:26945976-27137242	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv466334	chr9:27028947-27098940	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv613944	chr9:27028947-27098940	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3389158	chr9:27077102-27079300	Weak transcription Enhancers Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27024400-27082600	Weak transcription	Gastric	stomach
2	chr9:27024600-27082400	Weak transcription	Primary T cells from cord blood	blood
3	chr9:27024600-27083400	Weak transcription	Left Ventricle	heart
4	chr9:27024600-27085000	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:27024600-27086800	Weak transcription	Right Ventricle	heart
6	chr9:27024800-27094800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:27038000-27085000	Weak transcription	Brain Hippocampus Middle	brain
8	chr9:27053800-27086800	Weak transcription	HSMM	muscle
9	chr9:27055200-27087000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr9:27057400-27083000	Weak transcription	Liver	Liver
11	chr9:27060200-27085400	Weak transcription	Adipose Nuclei	Adipose
12	chr9:27062200-27081400	Weak transcription	Fetal Intestine Large	intestine
13	chr9:27067200-27081200	Weak transcription	Spleen	Spleen
14	chr9:27068000-27087400	Weak transcription	Lung	lung
15	chr9:27068200-27079400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr9:27070200-27080600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr9:27072200-27087000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr9:27073000-27086800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr9:27074000-27085400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr9:27074200-27085400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr9:27076600-27085400	Weak transcription	Ovary	ovary
22	chr9:27076800-27083000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:27076800-27087200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr9:27077200-27080800	Weak transcription	Fetal Intestine Small	intestine
25	chr9:27077600-27086800	Weak transcription	Fetal Stomach	stomach
26	chr9:27078400-27079200	Enhancers	HUVEC	blood vessel
27	chr9:27078600-27086800	Weak transcription	Fetal Heart	heart
28	chr9:27078800-27079400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links