Variant report

Variant	rs41525849
Chromosome Location	chr2:173725051-173725052
allele	C/T
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:18)

rs_ID	r²[population]
rs10188856	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12619176	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13007746	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17705978	1.00[CEU][hapmap]
rs17706710	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs2042562	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2081406	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3754765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972854	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs56407806	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6433379	0.85[CHB][hapmap]
rs6433380	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6713665	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6745299	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6755658	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7563076	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7584737	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7585545	1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173721600-173726000	Weak transcription	Gastric	stomach
2	chr2:173722200-173727400	Enhancers	Fetal Heart	heart
3	chr2:173723000-173725200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr2:173723400-173728800	Weak transcription	Pancreas	Pancrea
5	chr2:173724200-173725400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr2:173724200-173725600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr2:173724200-173727800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr2:173724400-173725200	Enhancers	Fetal Intestine Large	intestine
9	chr2:173724400-173725200	Flanking Active TSS	NHEK	skin
10	chr2:173724400-173725600	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr2:173724400-173725800	Active TSS	Brain Inferior Temporal Lobe	brain
12	chr2:173724400-173725800	Active TSS	Right Atrium	heart
13	chr2:173724400-173725800	Flanking Active TSS	HUVEC	blood vessel
14	chr2:173724400-173727800	Enhancers	Fetal Stomach	stomach
15	chr2:173724600-173725200	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr2:173724600-173725200	Active TSS	Brain Hippocampus Middle	brain
17	chr2:173724600-173725200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr2:173724600-173725200	Enhancers	Fetal Kidney	kidney
19	chr2:173724600-173725200	Enhancers	Right Ventricle	heart
20	chr2:173724600-173725400	Active TSS	Ovary	ovary
21	chr2:173724600-173726000	Active TSS	Brain Anterior Caudate	brain
22	chr2:173724600-173726000	Active TSS	Brain Substantia Nigra	brain
23	chr2:173724800-173725200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:173724800-173725200	Enhancers	Brain Germinal Matrix	brain
25	chr2:173724800-173725200	Bivalent Enhancer	HepG2	liver
26	chr2:173724800-173725400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr2:173724800-173725800	Weak transcription	Fetal Muscle Leg	muscle
28	chr2:173724800-173726600	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr2:173724800-173727800	Enhancers	Fetal Lung	lung
30	chr2:173725000-173725200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr2:173725000-173725200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr2:173725000-173725200	Enhancers	Adipose Nuclei	Adipose
33	chr2:173725000-173725200	Active TSS	Brain Angular Gyrus	brain
34	chr2:173725000-173725200	Active TSS	Brain Cingulate Gyrus	brain
35	chr2:173725000-173725200	Flanking Active TSS	Hela-S3	cervix
36	chr2:173725000-173725200	Flanking Bivalent TSS/Enh	Osteobl	bone
37	chr2:173725000-173725400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr2:173725000-173725400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr2:173725000-173725800	Weak transcription	Left Ventricle	heart
40	chr2:173725000-173726000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr2:173725000-173726000	Weak transcription	Psoas Muscle	Psoas
42	chr2:173725000-173728000	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links