Variant report

Variant	rs10230406
Chromosome Location	chr7:3683147-3683148
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC091801.1.1-7	chr7:3683098-3683416	ENSG00000236510.1

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10231366	0.85[EUR][1000 genomes]
rs10233162	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10236517	0.84[EUR][1000 genomes]
rs10237270	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10245607	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10246062	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10247668	0.85[EUR][1000 genomes]
rs10256371	0.82[EUR][1000 genomes]
rs10258910	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10260558	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10262079	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10263338	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10267519	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10271664	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10275915	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10275918	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10276626	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10279369	0.91[EUR][1000 genomes]
rs10280102	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1122065	0.86[ASN][1000 genomes]
rs11971242	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11972207	0.86[EUR][1000 genomes]
rs11974255	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11976554	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11976762	0.85[EUR][1000 genomes]
rs11976780	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11978956	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11979907	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11979940	0.86[ASN][1000 genomes]
rs16870900	0.82[ASN][1000 genomes]
rs17133591	0.82[ASN][1000 genomes]
rs1922014	0.82[ASN][1000 genomes]
rs1922015	0.82[ASN][1000 genomes]
rs1991758	0.89[ASN][1000 genomes]
rs2002670	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2002671	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2016197	0.93[ASN][1000 genomes]
rs2060179	0.86[ASN][1000 genomes]
rs2082359	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2341447	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2341448	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2341449	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2341450	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2341451	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2341452	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2341453	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28684473	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28698721	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28712054	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3817615	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4449688	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55785035	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56025717	0.84[EUR][1000 genomes]
rs56100032	0.87[EUR][1000 genomes]
rs56329315	0.87[ASN][1000 genomes]
rs56669571	0.83[ASN][1000 genomes]
rs56995955	0.82[ASN][1000 genomes]
rs57125879	0.84[ASN][1000 genomes]
rs57444839	0.90[EUR][1000 genomes]
rs57473088	0.85[ASN][1000 genomes]
rs57480717	0.87[ASN][1000 genomes]
rs57515074	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57709741	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58498999	0.83[ASN][1000 genomes]
rs58688082	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59465686	0.81[ASN][1000 genomes]
rs60281960	0.93[ASN][1000 genomes]
rs60372133	0.85[ASN][1000 genomes]
rs60673182	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61175597	0.94[ASN][1000 genomes]
rs61425932	0.87[ASN][1000 genomes]
rs61531398	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6462200	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6462201	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6462203	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6462207	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6462212	0.88[EUR][1000 genomes]
rs6462218	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6945446	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6959706	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6961261	0.86[ASN][1000 genomes]
rs6964347	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6968326	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6971989	0.83[ASN][1000 genomes]
rs7341473	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73673633	0.87[ASN][1000 genomes]
rs73673634	0.87[ASN][1000 genomes]
rs750820	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs750821	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs750822	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs752586	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7776767	0.83[EUR][1000 genomes]
rs7782934	0.90[ASN][1000 genomes]
rs7792749	0.83[EUR][1000 genomes]
rs7793515	0.84[EUR][1000 genomes]
rs7793775	0.84[EUR][1000 genomes]
rs7800550	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7800738	0.97[ASN][1000 genomes]
rs7800891	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7802868	0.83[ASN][1000 genomes]
rs7805946	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7807210	0.85[ASN][1000 genomes]
rs7811339	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs891856	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs957360	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018173	chr7:3258989-3879848	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv538660	chr7:3258989-3879848	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1016555	chr7:3298478-3872512	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv538661	chr7:3298478-3872512	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv916071	chr7:3423207-3697428	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv830888	chr7:3577214-3776276	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv948390	chr7:3609821-3734421	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1033415	chr7:3616095-3753563	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv538680	chr7:3616095-3753563	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1016930	chr7:3627295-3705057	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv530553	chr7:3629504-3736851	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv1016270	chr7:3650882-3753563	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv538681	chr7:3650882-3753563	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv1021650	chr7:3665232-4577439	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:3659200-3684400	Weak transcription	Right Ventricle	heart
2	chr7:3670400-3686600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr7:3671000-3695600	Weak transcription	Fetal Intestine Small	intestine
4	chr7:3674600-3684400	Weak transcription	Fetal Lung	lung
5	chr7:3676200-3688600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr7:3676600-3687800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr7:3677600-3683600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr7:3679000-3683600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr7:3679400-3686600	Weak transcription	Adipose Nuclei	Adipose
10	chr7:3679800-3690400	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr7:3680800-3683400	Weak transcription	Left Ventricle	heart
12	chr7:3681000-3683600	Weak transcription	Colon Smooth Muscle	Colon
13	chr7:3681200-3683400	Strong transcription	Aorta	Aorta
14	chr7:3681200-3695400	Weak transcription	Spleen	Spleen
15	chr7:3681600-3683200	Strong transcription	Pancreas	Pancrea
16	chr7:3681600-3683800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr7:3681800-3684600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr7:3682200-3687800	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr7:3682400-3687400	Weak transcription	Fetal Stomach	stomach
20	chr7:3683000-3683400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr7:3683000-3693000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links