Variant report

Variant	rs1938839
Chromosome Location	chr11:101484058-101484059
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIAA1377-1	chr11:101483827-101485776	ucscGeneNc_uc001pgr_2

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10791501	0.89[EUR][1000 genomes]
rs10791502	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs11600247	1.00[ASN][1000 genomes]
rs11601702	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11603508	1.00[ASN][1000 genomes]
rs11603928	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11603969	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11605037	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11605091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606855	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607633	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12796679	1.00[ASN][1000 genomes]
rs17675774	1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17676029	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17743562	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17743713	1.00[ASN][1000 genomes]
rs17744964	1.00[ASN][1000 genomes]
rs17745205	1.00[ASN][1000 genomes]
rs1938838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1938851	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1939431	1.00[ASN][1000 genomes]
rs1939446	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1939450	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4254048	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4457714	1.00[CHB][hapmap]
rs4469857	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4474404	1.00[ASN][1000 genomes]
rs4553341	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4597037	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4754765	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4754768	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4754769	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56829971	1.00[ASN][1000 genomes]
rs60385781	1.00[ASN][1000 genomes]
rs61915443	1.00[ASN][1000 genomes]
rs61915444	1.00[ASN][1000 genomes]
rs61915445	1.00[ASN][1000 genomes]
rs61916052	1.00[ASN][1000 genomes]
rs61916053	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61916054	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61916055	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61916056	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61917405	1.00[ASN][1000 genomes]
rs61918162	1.00[ASN][1000 genomes]
rs61918163	1.00[ASN][1000 genomes]
rs61918373	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61918375	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61918376	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61918413	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6590880	1.00[CHB][hapmap]
rs6590881	1.00[CHB][hapmap]
rs6590882	1.00[CHB][hapmap]
rs6590886	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7112255	1.00[CHB][hapmap]
rs7115426	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7116268	1.00[ASN][1000 genomes]
rs7116748	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131328	0.96[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72976319	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7925662	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7931676	1.00[CHB][hapmap]
rs7943559	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949939	1.00[ASN][1000 genomes]
rs7950828	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	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:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101481200-101489800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:101481400-101487600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:101483000-101484200	Enhancers	Dnd41	blood
4	chr11:101484000-101484200	Enhancers	H9 Cell Line	embryonic stem cell
5	chr11:101484000-101488200	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links