Variant report

Variant	rs2299209
Chromosome Location	chr7:86274640-86274641
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1024515	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12668286	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1405881	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1527765	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1581638	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17607448	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17675638	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1830249	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2102384	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2189815	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2237543	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2237545	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2282958	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2299211	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373268	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56227688	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57843796	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60097039	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73704989	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7794411	0.98[EUR][1000 genomes];0.93[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	nsv1025032	chr7:86032479-86642973	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv831053	chr7:86268171-86440999	Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86272600-86275000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr7:86272600-86275200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
3	chr7:86272600-86275400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:86272600-86275600	Active TSS	Fetal Brain Male	brain
5	chr7:86272600-86277200	Active TSS	Brain Hippocampus Middle	brain
6	chr7:86272600-86277200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr7:86272600-86277400	Active TSS	Brain Angular Gyrus	brain
8	chr7:86272600-86277800	Active TSS	Brain Cingulate Gyrus	brain
9	chr7:86272600-86278000	Active TSS	Brain Anterior Caudate	brain
10	chr7:86272600-86278000	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr7:86272800-86274800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
12	chr7:86272800-86274800	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
13	chr7:86272800-86274800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
14	chr7:86272800-86274800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
15	chr7:86272800-86275000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr7:86272800-86275800	Active TSS	Brain Substantia Nigra	brain
17	chr7:86273000-86275000	Bivalent Enhancer	Liver	Liver
18	chr7:86273000-86275400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
19	chr7:86273200-86274800	Enhancers	Gastric	stomach
20	chr7:86273400-86274800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
21	chr7:86273400-86274800	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr7:86273400-86275400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
23	chr7:86273400-86275600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
24	chr7:86273600-86274800	Bivalent Enhancer	Fetal Heart	heart
25	chr7:86273800-86275200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr7:86274200-86274800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr7:86274200-86274800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr7:86274400-86274800	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
29	chr7:86274400-86274800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
30	chr7:86274400-86274800	Bivalent Enhancer	Colon Smooth Muscle	Colon
31	chr7:86274400-86275000	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr7:86274600-86274800	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr7:86274600-86274800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr7:86274600-86274800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr7:86274600-86274800	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr7:86274600-86274800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
37	chr7:86274600-86274800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr7:86274600-86274800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr7:86274600-86274800	Bivalent Enhancer	Adipose Nuclei	Adipose
40	chr7:86274600-86274800	Bivalent Enhancer	Fetal Lung	lung
41	chr7:86274600-86274800	Flanking Active TSS	Pancreas	Pancrea
42	chr7:86274600-86274800	Flanking Active TSS	Right Ventricle	heart
43	chr7:86274600-86275000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
44	chr7:86274600-86277600	Active TSS	Fetal Brain Female	brain
45	chr7:86274600-86283200	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links