Variant report

Variant	rs5025734
Chromosome Location	chr10:27098205-27098206
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12413383	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12764628	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12774231	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12776877	0.86[EUR][1000 genomes]
rs12779919	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12780703	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16927334	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17669895	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17747961	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17748178	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2018904	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094150	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2182294	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2182295	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35175791	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35531360	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3802614	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5010875	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67940790	0.83[AMR][1000 genomes]
rs68021348	0.83[EUR][1000 genomes]
rs7091364	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7092571	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7092950	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7094825	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7096584	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7916104	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7920164	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27075000-27104600	Weak transcription	Esophagus	oesophagus
2	chr10:27082200-27105400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:27085600-27119000	Weak transcription	Fetal Lung	lung
4	chr10:27086600-27110400	Weak transcription	Fetal Intestine Large	intestine
5	chr10:27088200-27100800	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr10:27088600-27098800	Weak transcription	Pancreas	Pancrea
7	chr10:27091800-27113200	Weak transcription	Placenta	Placenta
8	chr10:27092200-27099600	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr10:27093400-27112400	Weak transcription	Left Ventricle	heart
10	chr10:27093600-27103000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:27094000-27108000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr10:27094600-27099000	Weak transcription	A549	lung
13	chr10:27094600-27099400	Weak transcription	Fetal Muscle Leg	muscle
14	chr10:27094600-27108400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:27094600-27111200	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr10:27094800-27104400	Weak transcription	Psoas Muscle	Psoas
17	chr10:27094800-27108000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr10:27094800-27111200	Weak transcription	Ovary	ovary
19	chr10:27095000-27130600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr10:27095000-27138600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:27095200-27099400	Weak transcription	Fetal Intestine Small	intestine
22	chr10:27095200-27105000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:27095200-27106600	Weak transcription	Osteobl	bone
24	chr10:27095200-27110800	Weak transcription	Primary hematopoietic stem cells	blood
25	chr10:27095200-27119000	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr10:27095400-27099000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr10:27095400-27104400	Weak transcription	Brain Cingulate Gyrus	brain
28	chr10:27095400-27110800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr10:27095400-27111200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr10:27095400-27113000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr10:27095400-27116200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr10:27095400-27129800	Weak transcription	NHEK	skin
33	chr10:27095600-27098800	Weak transcription	Brain Anterior Caudate	brain
34	chr10:27095600-27099000	Weak transcription	Spleen	Spleen
35	chr10:27095600-27101200	Weak transcription	NHLF	lung
36	chr10:27095600-27103000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr10:27095600-27103400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr10:27095600-27105000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr10:27095600-27105800	Weak transcription	Lung	lung
40	chr10:27095600-27105800	Weak transcription	Thymus	Thymus
41	chr10:27095600-27106000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr10:27095600-27106000	Weak transcription	Aorta	Aorta
43	chr10:27095600-27107800	Weak transcription	Brain Hippocampus Middle	brain
44	chr10:27095600-27109800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr10:27095600-27111000	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr10:27095600-27114600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr10:27095600-27115400	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr10:27095600-27129000	Weak transcription	Right Atrium	heart
49	chr10:27095600-27132600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr10:27095600-27148800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links