Variant report

Variant	rs292929
Chromosome Location	chr16:72781102-72781103
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DHX38-4	chr16:72780761-72781401	NONHSAT143601

Extended variants
information (count: 144 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs1035983	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1035984	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10400973	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10492826	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12051226	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12051305	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12103361	0.94[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12595874	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12596196	0.88[AMR][1000 genomes]
rs12597202	0.86[AMR][1000 genomes]
rs12597703	0.88[AMR][1000 genomes]
rs12598003	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12598048	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12598858	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12599442	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12599589	0.88[AMR][1000 genomes]
rs12600293	1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12921040	0.80[ASN][1000 genomes]
rs13332877	0.94[CHB][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes]
rs13333025	0.82[AMR][1000 genomes]
rs1366846	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1429431	0.96[ASN][1000 genomes]
rs1429432	0.96[ASN][1000 genomes]
rs1429433	0.83[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1429434	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1544964	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs16971279	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16971281	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16971287	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16971288	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16971290	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16971292	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16971306	0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16971312	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16971314	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16971315	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16971318	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16971321	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16971324	0.83[AMR][1000 genomes]
rs16971325	0.86[AMR][1000 genomes]
rs1859593	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1990096	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2040939	0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2040940	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2043022	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2115625	0.83[ASN][1000 genomes]
rs2115626	0.83[ASN][1000 genomes]
rs2229286	0.88[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs2229290	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2266932	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2266934	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2266935	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2266936	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2266938	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2266939	0.89[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2266941	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2266942	0.89[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2266944	0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2358805	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2358811	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2358812	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs292913	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292914	0.93[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292915	0.93[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292916	0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs292917	0.93[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs292918	0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292919	0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292920	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292921	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292922	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292923	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292924	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292925	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292926	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292927	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292928	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292930	0.96[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs292931	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs292932	0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs292933	0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs292934	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs292935	0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292937	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292938	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs292939	0.96[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs292940	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs292941	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs292942	0.96[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs292943	0.96[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs292945	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs292946	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs292947	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3812983	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4238966	0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4278755	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4788479	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4788655	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4788657	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4788663	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4788664	0.84[AMR][1000 genomes]
rs4788666	0.86[AMR][1000 genomes]
rs4788667	0.84[AMR][1000 genomes]
rs4788669	0.84[AMR][1000 genomes]
rs59254438	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs60974482	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6416744	0.84[AMR][1000 genomes]
rs6499578	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6499579	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6499581	0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6499591	0.84[AMR][1000 genomes]
rs6499592	0.84[AMR][1000 genomes]
rs6499593	0.86[AMR][1000 genomes]
rs714101	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs714102	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7187123	0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7194567	0.85[ASN][1000 genomes]
rs7198782	0.81[ASN][1000 genomes]
rs7199644	0.85[ASN][1000 genomes]
rs7199653	0.85[ASN][1000 genomes]
rs7203205	0.85[ASN][1000 genomes]
rs7203232	0.96[ASN][1000 genomes]
rs7206490	0.83[AMR][1000 genomes]
rs740176	0.86[AMR][1000 genomes]
rs74028108	0.88[ASN][1000 genomes]
rs8044614	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs8053419	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs8059268	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9302640	0.88[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs982799	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9921081	0.82[AMR][1000 genomes]
rs9923006	0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9924937	0.84[ASN][1000 genomes]
rs9927280	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs9933433	0.94[CHB][hapmap];0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs9934215	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9936708	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs999210	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1060983	chr16:72074832-72791629	Genic enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
2	nsv1060804	chr16:72078486-72791629	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
3	nsv534039	chr16:72287171-72851170	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1063049	chr16:72577004-72887111	Weak transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv542952	chr16:72577004-72887111	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	esv1822094	chr16:72694760-72787961	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72773800-72784000	Weak transcription	NH-A	brain
2	chr16:72778200-72784200	Weak transcription	Fetal Lung	lung
3	chr16:72778600-72784000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr16:72778600-72791400	Weak transcription	Primary B cells from cord blood	blood
5	chr16:72780000-72783600	Enhancers	Fetal Intestine Large	intestine
6	chr16:72780800-72787000	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links