Variant report

Variant	rs10919410
Chromosome Location	chr1:170429792-170429793
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIFAP3-2	chr1:170429594-170431560	ENSG00000231407.1
2	lnc-KIFAP3-2	chr1:170429594-170431560	NONHSAT007498

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10733056	0.87[YRI][hapmap]
rs10753815	0.84[YRI][hapmap]
rs10800521	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10800526	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10800527	0.88[YRI][hapmap]
rs10919390	0.84[EUR][1000 genomes]
rs10919391	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919394	0.87[AMR][1000 genomes]
rs10919403	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919405	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919406	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919408	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919416	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10919417	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919421	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919423	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919424	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919426	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919430	1.00[ASN][1000 genomes]
rs11577004	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11578119	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11584810	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11587811	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12066718	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12116863	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12116909	0.84[YRI][hapmap]
rs12116910	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12120718	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12120764	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12123065	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12124354	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12124515	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12126472	1.00[ASN][1000 genomes]
rs12128140	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12128573	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12130086	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12130520	1.00[ASN][1000 genomes]
rs12132914	1.00[ASN][1000 genomes]
rs12134482	0.89[ASN][1000 genomes]
rs12135132	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12135326	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12137818	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12138138	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12138428	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12139124	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140689	1.00[ASN][1000 genomes]
rs12141076	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12142689	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12145296	0.80[AMR][1000 genomes]
rs12145961	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12402306	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12402526	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12405323	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12409985	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12724601	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1333133	0.84[YRI][hapmap]
rs1333142	0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1412890	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1412892	0.88[YRI][hapmap]
rs1537390	0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1537395	0.96[YRI][hapmap]
rs1537397	0.84[YRI][hapmap]
rs1591148	0.87[AMR][1000 genomes]
rs1591149	0.87[AMR][1000 genomes]
rs1591150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17350305	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17350312	0.89[ASN][1000 genomes]
rs1888173	1.00[ASN][1000 genomes]
rs1928716	0.93[ASW][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1930632	0.87[YRI][hapmap]
rs1999523	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2027020	0.87[AMR][1000 genomes]
rs2150029	0.84[YRI][hapmap]
rs2183372	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2225322	0.84[YRI][hapmap]
rs2421325	0.88[YRI][hapmap]
rs2421326	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2901401	0.85[YRI][hapmap]
rs3923079	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4281371	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4363474	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4399219	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4508077	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656776	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656779	0.84[YRI][hapmap]
rs4656781	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6427253	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6427260	0.88[YRI][hapmap]
rs6427261	0.88[YRI][hapmap]
rs66639118	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6664037	0.86[YRI][hapmap]
rs6665215	0.87[AMR][1000 genomes]
rs6667728	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6669308	0.88[YRI][hapmap]
rs6671312	0.88[YRI][hapmap]
rs6675683	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6689586	0.87[AMR][1000 genomes]
rs6693763	0.88[YRI][hapmap]
rs6696114	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6701218	0.84[YRI][hapmap]
rs72709772	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72709774	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7511715	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519067	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7531125	0.84[YRI][hapmap]
rs7553254	0.88[YRI][hapmap]

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	nsv1014033	chr1:169968488-170453021	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535200	chr1:169968488-170453021	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
3	nsv872543	chr1:170171083-170674903	Weak transcription Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv533915	chr1:170258766-170725296	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:170415400-170430600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr1:170429000-170432200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr1:170429200-170432200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr1:170429400-170430800	Enhancers	Osteobl	bone
5	chr1:170429400-170431800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:170429400-170431800	Enhancers	Dnd41	blood
7	chr1:170429600-170430600	Weak transcription	Fetal Muscle Leg	muscle
8	chr1:170429600-170431600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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