Variant report

Variant	rs11224963
Chromosome Location	chr11:101563394-101563395
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10501985	0.85[JPT][hapmap]
rs10895146	0.85[JPT][hapmap]
rs10895147	0.85[JPT][hapmap]
rs11224823	0.84[CEU][hapmap]
rs11224834	1.00[MEX][hapmap]
rs11224841	1.00[MEX][hapmap]
rs11224851	1.00[MEX][hapmap]
rs11224857	0.81[CEU][hapmap]
rs11224862	1.00[CEU][hapmap]
rs11224876	0.84[AMR][1000 genomes]
rs11224879	0.89[CEU][hapmap];0.82[JPT][hapmap]
rs11224894	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224898	0.83[EUR][1000 genomes]
rs11224901	0.83[EUR][1000 genomes]
rs11224952	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11224955	0.91[CEU][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11224956	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11224958	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11224961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11224964	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11224965	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224972	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11224973	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11224975	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11224978	0.93[EUR][1000 genomes]
rs11224979	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11493972	0.85[JPT][hapmap];0.84[AMR][1000 genomes]
rs11512501	0.85[EUR][1000 genomes]
rs11512686	0.81[EUR][1000 genomes]
rs12275413	0.82[JPT][hapmap]
rs12361061	0.84[AMR][1000 genomes]
rs12363566	0.85[EUR][1000 genomes]
rs12364156	0.90[EUR][1000 genomes]
rs12789602	0.91[CEU][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12790768	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12795273	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12796392	0.84[CEU][hapmap]
rs12796523	0.83[EUR][1000 genomes]
rs12796974	1.00[CEU][hapmap]
rs12797777	0.83[EUR][1000 genomes]
rs12798819	0.89[CEU][hapmap]
rs12802694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34013568	0.85[EUR][1000 genomes]
rs34159741	0.83[EUR][1000 genomes]
rs34209047	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34377172	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34649411	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34813443	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35456437	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35627477	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3802829	0.80[AMR][1000 genomes]
rs3824935	0.91[CEU][hapmap];0.85[JPT][hapmap];0.87[MKK][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3922961	0.80[AMR][1000 genomes]
rs4379797	0.90[EUR][1000 genomes]
rs4394815	0.85[JPT][hapmap]
rs4406798	0.85[JPT][hapmap]
rs4556510	0.85[JPT][hapmap]
rs66732103	0.85[EUR][1000 genomes]
rs67807450	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7103450	0.90[CEU][hapmap];0.82[JPT][hapmap]
rs7109847	0.82[EUR][1000 genomes]
rs7120953	0.85[JPT][hapmap]
rs7121108	0.91[CEU][hapmap];0.85[JPT][hapmap]
rs7126833	0.91[CEU][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.80[EUR][1000 genomes]
rs72982363	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	nsv461	chr11:101534107-101584004	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv468853	chr11:101539408-101616696	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv556139	chr11:101539408-101616696	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv469987	chr11:101547723-101610380	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv508653	chr11:101548861-101574051	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv74	chr11:101560540-101608664	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv898332	chr11:101562004-101732566	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11224963	DYNC2H1	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101561600-101568400	Weak transcription	Ovary	ovary
2	chr11:101563200-101564400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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