Variant report

Variant	rs11224956
Chromosome Location	chr11:101557428-101557429
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:100998594..101000111-chr11:101554824..101557594,2	MCF-7	breast:
2	chr11:101555926..101558823-chr11:101880932..101883184,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082175	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:67)

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	0.88[AMR][1000 genomes]
rs11224879	0.89[CEU][hapmap];0.82[JPT][hapmap]
rs11224894	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224898	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224901	0.83[EUR][1000 genomes]
rs11224952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11224955	0.91[CEU][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11224958	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11224961	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11224963	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11224964	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11224965	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11224967	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11224972	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11224973	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11224975	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11224978	0.93[EUR][1000 genomes]
rs11224979	0.93[EUR][1000 genomes]
rs11493972	0.85[JPT][hapmap];0.88[AMR][1000 genomes]
rs11512501	0.85[EUR][1000 genomes]
rs11512686	0.81[EUR][1000 genomes]
rs12146595	0.81[AMR][1000 genomes]
rs12275413	0.82[JPT][hapmap]
rs12361061	0.88[AMR][1000 genomes]
rs12363566	0.85[EUR][1000 genomes]
rs12364156	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12789602	0.91[CEU][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12790768	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12795273	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12796392	0.84[CEU][hapmap]
rs12796523	0.83[EUR][1000 genomes]
rs12796974	1.00[CEU][hapmap]
rs12797777	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12798819	0.89[CEU][hapmap]
rs12802694	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34013568	0.85[EUR][1000 genomes]
rs34159741	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34209047	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34377172	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34649411	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34813443	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35456437	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35627477	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3802829	0.84[AMR][1000 genomes]
rs3824935	0.91[CEU][hapmap];0.85[JPT][hapmap];0.87[MKK][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3922961	0.84[AMR][1000 genomes]
rs4379797	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4394815	0.85[JPT][hapmap]
rs4406798	0.85[JPT][hapmap]
rs4556510	0.85[JPT][hapmap]
rs66732103	0.85[EUR][1000 genomes]
rs67807450	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7103450	0.90[CEU][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes]
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];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72982363	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	esv2761704	chr11:101514325-101559016	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv461	chr11:101534107-101584004	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv468853	chr11:101539408-101616696	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv556139	chr11:101539408-101616696	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv469987	chr11:101547723-101610380	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv508653	chr11:101548861-101574051	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11224956	DYNC2H1	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101555400-101558000	Enhancers	A549	lung
2	chr11:101556000-101563000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:101556600-101558000	Enhancers	NHEK	skin
4	chr11:101557000-101558000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr11:101557000-101558000	Enhancers	HMEC	breast
6	chr11:101557000-101558000	Enhancers	NH-A	brain
7	chr11:101557000-101558000	Enhancers	NHDF-Ad	bronchial
8	chr11:101557000-101558200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr11:101557200-101558000	Enhancers	Osteobl	bone
10	chr11:101557200-101558200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr11:101557200-101558200	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links