Variant report

Variant	rs59862115
Chromosome Location	chr1:166943450-166943451
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs16858144	0.81[EUR][1000 genomes]
rs16858259	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs41269700	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55728917	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55737217	0.81[EUR][1000 genomes]
rs55778013	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55874020	0.81[EUR][1000 genomes]
rs56114212	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56190430	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56252399	0.90[EUR][1000 genomes]
rs56259579	0.81[EUR][1000 genomes]
rs57274627	0.90[EUR][1000 genomes]
rs6699306	0.81[EUR][1000 genomes]
rs73026741	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73026777	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73026798	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73026802	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73028838	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73028882	0.81[EUR][1000 genomes]
rs73028886	0.81[EUR][1000 genomes]
rs73028896	0.81[EUR][1000 genomes]
rs74119526	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916491	chr1:166000783-166948513	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:166941400-166943800	Enhancers	Fetal Heart	heart
2	chr1:166941600-166944000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr1:166941800-166944000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
4	chr1:166941800-166945400	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr1:166942200-166943600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:166942200-166943800	Bivalent Enhancer	Fetal Thymus	thymus
7	chr1:166942200-166945800	Active TSS	Fetal Brain Female	brain
8	chr1:166942400-166944000	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
9	chr1:166942400-166944200	Weak transcription	Spleen	Spleen
10	chr1:166942600-166943600	Weak transcription	Colon Smooth Muscle	Colon
11	chr1:166942600-166943800	Weak transcription	Pancreas	Pancrea
12	chr1:166943000-166943800	Enhancers	Fetal Brain Male	brain
13	chr1:166943000-166943800	Flanking Active TSS	HSMMtube	muscle
14	chr1:166943000-166944000	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr1:166943000-166944000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
16	chr1:166943000-166944000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:166943000-166944000	Flanking Active TSS	Brain Cingulate Gyrus	brain
18	chr1:166943000-166944200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
19	chr1:166943000-166944400	Flanking Active TSS	Dnd41	blood
20	chr1:166943000-166944400	Flanking Active TSS	GM12878-XiMat	blood
21	chr1:166943200-166943600	Bivalent Enhancer	Fetal Muscle Leg	muscle
22	chr1:166943200-166943600	Enhancers	Right Ventricle	heart
23	chr1:166943200-166943800	Active TSS	Brain Angular Gyrus	brain
24	chr1:166943200-166943800	Flanking Active TSS	Brain Germinal Matrix	brain
25	chr1:166943200-166943800	Bivalent Enhancer	Rectal Smooth Muscle	rectum
26	chr1:166943200-166945400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
27	chr1:166943200-166945400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr1:166943200-166945600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
29	chr1:166943400-166943600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr1:166943400-166943600	Bivalent Enhancer	Brain Substantia Nigra	brain
31	chr1:166943400-166943600	Bivalent/Poised TSS	Fetal Kidney	kidney
32	chr1:166943400-166943600	Enhancers	Pancreatic Islets	Pancreatic Islet
33	chr1:166943400-166943600	Bivalent Enhancer	Left Ventricle	heart
34	chr1:166943400-166943600	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
35	chr1:166943400-166943600	Enhancers	Stomach Smooth Muscle	stomach
36	chr1:166943400-166943800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
37	chr1:166943400-166943800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
38	chr1:166943400-166943800	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
39	chr1:166943400-166943800	Flanking Active TSS	Brain Hippocampus Middle	brain
40	chr1:166943400-166943800	Enhancers	Thymus	Thymus
41	chr1:166943400-166944000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
42	chr1:166943400-166944000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
43	chr1:166943400-166944000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
44	chr1:166943400-166944000	Bivalent Enhancer	HSMM	muscle
45	chr1:166943400-166944200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr1:166943400-166944200	Flanking Active TSS	Brain Anterior Caudate	brain
47	chr1:166943400-166946000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links