Variant report

Variant	rs12495309
Chromosome Location	chr3:115976826-115976827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11920943	0.80[AFR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12492442	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1549831	0.80[ASN][1000 genomes]
rs16845196	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1870708	0.80[ASN][1000 genomes]
rs2306064	0.80[ASN][1000 genomes]
rs73140978	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73140979	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73140982	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73143014	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][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	nsv877360	chr3:115916171-116023990	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	esv1808373	chr3:115952799-115984473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115962400-115983200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:115965800-115983200	Weak transcription	Fetal Brain Male	brain
3	chr3:115971200-115984800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:115973000-115983800	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:115973200-115977000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:115975200-115978000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:115975600-115977000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
8	chr3:115975600-115978400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
9	chr3:115976000-115987000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:115976200-115977000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:115976200-115977600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:115976200-115977600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:115976200-115979400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:115976200-115982800	Weak transcription	Fetal Lung	lung
15	chr3:115976200-115984000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr3:115976200-115987000	Weak transcription	Brain Angular Gyrus	brain
17	chr3:115976400-115977800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr3:115976400-115977800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:115976400-115978000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr3:115976400-115978000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:115976400-115978400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr3:115976600-115977800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr3:115976600-115979400	Weak transcription	NHDF-Ad	bronchial
24	chr3:115976800-115977200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
25	chr3:115976800-115977200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
26	chr3:115976800-115977800	Weak transcription	Colon Smooth Muscle	Colon
27	chr3:115976800-115982600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links