Variant report

Variant	rs58891696
Chromosome Location	chr1:47729637-47729638
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:47721422..47723320-chr1:47729303..47730814,2	K562	blood:
2	chr1:47656407..47658667-chr1:47728325..47730226,2	K562	blood:
3	chr1:47723807..47725523-chr1:47727010..47730134,4	K562	blood:
4	chr1:47693951..47697518-chr1:47723725..47731232,8	K562	blood:
5	chr1:47712928..47715830-chr1:47727975..47729744,2	K562	blood:
6	chr1:47721422..47724402-chr1:47728933..47730814,3	K562	blood:
7	chr1:47728110..47730065-chr1:47732683..47735078,2	K562	blood:
8	chr1:47727088..47730894-chr1:47732029..47735166,5	K562	blood:
9	chr1:47728733..47731424-chr1:47736676..47738245,2	K562	blood:
10	chr1:47729571..47732488-chr1:47741139..47743930,3	K562	blood:
11	chr1:47642334..47646964-chr1:47725886..47730593,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000162367	Chromatin interaction
ENSG00000225506	Chromatin interaction
ENSG00000162366	Chromatin interaction
ENSG00000224805	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10157734	0.86[ASN][1000 genomes]
rs10218615	0.86[ASN][1000 genomes]
rs10789509	0.86[ASN][1000 genomes]
rs11211489	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211490	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211492	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211505	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211512	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11211516	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11211526	0.86[ASN][1000 genomes]
rs11211537	0.86[ASN][1000 genomes]
rs11576796	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11577236	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11577960	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11578360	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11579854	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11580114	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11580148	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11583162	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11584518	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11587014	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11587107	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11587272	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11588964	0.86[ASN][1000 genomes]
rs12117686	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12118205	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12118206	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12123269	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12123358	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12129259	0.86[ASN][1000 genomes]
rs12129594	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12131978	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12132521	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12132909	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12134888	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12135037	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12139700	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12140580	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12143808	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12144920	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12145103	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12145974	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12184262	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12184269	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12184297	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12406951	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12407463	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12409300	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12410850	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12718447	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12729251	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12738065	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12749507	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12751618	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12756634	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12757893	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13374382	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13376679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17103095	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17103168	0.86[ASN][1000 genomes]
rs17370386	0.86[ASN][1000 genomes]
rs2097	0.86[ASN][1000 genomes]
rs2098	0.86[ASN][1000 genomes]
rs2405787	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2897238	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33980430	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34192192	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34979288	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35234940	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35601384	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35856603	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4375315	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4481897	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56804458	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60352530	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6660651	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6665067	0.80[ASN][1000 genomes]
rs6670458	0.86[ASN][1000 genomes]
rs6688323	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6688804	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6698471	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6698717	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs67221389	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67295054	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67905093	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71502303	0.86[ASN][1000 genomes]
rs72686209	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7354822	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7415976	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7514213	0.86[ASN][1000 genomes]
rs7534328	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7548099	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9725517	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][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	nsv822531	chr1:47713892-47730083	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:47705200-47766400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:47705600-47766400	Weak transcription	Primary T cells from cord blood	blood
3	chr1:47709800-47745000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:47712600-47735000	Weak transcription	NHDF-Ad	bronchial
5	chr1:47712600-47742600	Weak transcription	Fetal Lung	lung
6	chr1:47712800-47745600	Weak transcription	Fetal Brain Female	brain
7	chr1:47713000-47736400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:47713200-47745800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:47713800-47745800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr1:47714400-47779200	Weak transcription	Small Intestine	intestine
11	chr1:47714600-47745800	Weak transcription	Primary B cells from cord blood	blood
12	chr1:47714600-47778400	Weak transcription	Fetal Heart	heart
13	chr1:47714800-47732000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr1:47714800-47741200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr1:47714800-47742800	Weak transcription	Fetal Kidney	kidney
16	chr1:47714800-47746000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr1:47715400-47730000	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr1:47715400-47740000	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr1:47715600-47749200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr1:47715800-47735400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr1:47716600-47739200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr1:47716600-47772600	Strong transcription	Dnd41	blood
23	chr1:47716800-47739000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr1:47717000-47745800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr1:47718200-47746000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr1:47718800-47730600	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr1:47718800-47739800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr1:47719800-47745800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr1:47720200-47730400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:47720400-47730400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr1:47720400-47741400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr1:47720400-47757000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr1:47720600-47766400	Weak transcription	Brain Germinal Matrix	brain
34	chr1:47721000-47735400	Weak transcription	Fetal Muscle Leg	muscle
35	chr1:47721000-47749000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr1:47721600-47766800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr1:47723400-47772400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr1:47724000-47732800	Weak transcription	Fetal Muscle Trunk	muscle
39	chr1:47724200-47732200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr1:47724600-47732000	Weak transcription	HepG2	liver
41	chr1:47724600-47739400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr1:47725200-47733200	Strong transcription	K562	blood
43	chr1:47726000-47745200	Weak transcription	Fetal Intestine Large	intestine
44	chr1:47726200-47745800	Weak transcription	Primary hematopoietic stem cells	blood
45	chr1:47726400-47734800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr1:47726600-47732000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr1:47726600-47734800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr1:47726600-47735400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr1:47726800-47735000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr1:47726800-47745200	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links