Variant report

Variant	rs3922961
Chromosome Location	chr11:101455148-101455149
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIAA1377-2	chr11:101455026-101455855	NONHSAT023860

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10501985	0.97[ASN][1000 genomes]
rs10895146	0.97[ASN][1000 genomes]
rs10895147	0.97[ASN][1000 genomes]
rs11224866	0.97[ASN][1000 genomes]
rs11224867	0.94[ASN][1000 genomes]
rs11224868	0.94[ASN][1000 genomes]
rs11224869	0.97[ASN][1000 genomes]
rs11224871	0.97[ASN][1000 genomes]
rs11224872	0.97[ASN][1000 genomes]
rs11224876	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11224879	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11224883	0.84[ASN][1000 genomes]
rs11224894	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11224898	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11224901	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11224952	0.92[AMR][1000 genomes]
rs11224955	0.84[AMR][1000 genomes]
rs11224956	0.84[AMR][1000 genomes]
rs11224958	0.84[AMR][1000 genomes]
rs11224961	0.80[AMR][1000 genomes]
rs11224963	0.80[AMR][1000 genomes]
rs11224967	0.80[AMR][1000 genomes]
rs11493972	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11512501	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11512686	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11606771	0.97[ASN][1000 genomes]
rs12146595	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12275413	0.97[ASN][1000 genomes]
rs12361061	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12363566	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12364156	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12366048	0.97[ASN][1000 genomes]
rs12789602	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12790768	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12796523	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12797777	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12802694	0.80[AMR][1000 genomes]
rs34013568	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34159741	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34209047	0.80[AMR][1000 genomes]
rs35456437	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3802829	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824935	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4378349	0.97[ASN][1000 genomes]
rs4379797	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4394815	0.97[ASN][1000 genomes]
rs4406798	0.97[ASN][1000 genomes]
rs4556510	0.97[ASN][1000 genomes]
rs66732103	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7103450	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109847	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7120953	0.97[ASN][1000 genomes]
rs7121108	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7126833	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7129904	0.97[ASN][1000 genomes]
rs72976306	0.88[AMR][1000 genomes]
rs7479835	0.97[ASN][1000 genomes]
rs7938938	0.97[ASN][1000 genomes]
rs7951517	0.97[ASN][1000 genomes]
rs7952280	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv556131	chr11:100985777-101480017	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv530644	chr11:101010088-101486038	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv898330	chr11:101243644-101722031	Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	esv2754308	chr11:101409790-101502790	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv898331	chr11:101436689-101492630	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1052159	chr11:101439655-101853293	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1051457	chr11:101446705-101837650	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv530645	chr11:101451416-101778666	Bivalent/Poised TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101452200-101455200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr11:101452200-101455600	Active TSS	Breast Myoepithelial Primary Cells	Breast
3	chr11:101452400-101455200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr11:101452800-101455200	Active TSS	Ovary	ovary
5	chr11:101452800-101455400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
6	chr11:101452800-101455600	Active TSS	Brain Anterior Caudate	brain
7	chr11:101453000-101455400	Active TSS	Colon Smooth Muscle	Colon
8	chr11:101453200-101455200	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
9	chr11:101453200-101455200	Bivalent/Poised TSS	NHEK	skin
10	chr11:101453800-101455200	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr11:101453800-101455200	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
12	chr11:101453800-101455400	Active TSS	Brain Inferior Temporal Lobe	brain
13	chr11:101454200-101455200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr11:101454400-101455200	Bivalent/Poised TSS	Fetal Brain Male	brain
15	chr11:101454400-101455400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
16	chr11:101454400-101455400	Active TSS	NHLF	lung
17	chr11:101454600-101455200	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
18	chr11:101454600-101455200	Flanking Active TSS	Fetal Lung	lung
19	chr11:101454600-101455200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
20	chr11:101454600-101455400	Active TSS	Duodenum Smooth Muscle	Duodenum
21	chr11:101454600-101458200	Weak transcription	Gastric	stomach
22	chr11:101454800-101455200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
23	chr11:101454800-101455200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
24	chr11:101454800-101455200	Active TSS	Fetal Muscle Trunk	muscle
25	chr11:101454800-101462200	Weak transcription	Pancreas	Pancrea
26	chr11:101455000-101455200	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
27	chr11:101455000-101455200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
28	chr11:101455000-101455200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
29	chr11:101455000-101455200	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr11:101455000-101455200	Bivalent Enhancer	Adipose Nuclei	Adipose
31	chr11:101455000-101455200	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
32	chr11:101455000-101455200	Bivalent Enhancer	Brain Germinal Matrix	brain
33	chr11:101455000-101455200	Bivalent Enhancer	Fetal Heart	heart
34	chr11:101455000-101455200	Flanking Active TSS	Fetal Kidney	kidney
35	chr11:101455000-101455200	Bivalent/Poised TSS	NHDF-Ad	bronchial
36	chr11:101455000-101455400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell

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