Variant report

Variant	rs11920943
Chromosome Location	chr3:115965956-115965957
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10934324	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs12492442	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12495309	0.80[AFR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12496133	1.00[CEU][hapmap];0.90[CHB][hapmap]
rs12634800	0.84[CHB][hapmap]
rs12695324	0.84[CHB][hapmap]
rs13095238	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs1549831	0.84[CHB][hapmap]
rs16824649	0.84[CHB][hapmap]
rs16824691	0.82[CHB][hapmap]
rs16824696	0.83[CHB][hapmap]
rs16845196	0.84[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.86[MEX][hapmap];0.91[MKK][hapmap];0.86[TSI][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1870707	0.84[CHB][hapmap]
rs1870709	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs1993732	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs2279109	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs3195	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs4831090	0.84[CHB][hapmap]
rs4831126	0.84[CHB][hapmap]
rs4831127	0.84[CHB][hapmap]
rs4831128	0.83[CHB][hapmap]
rs6438308	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs6778040	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs73140978	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73140979	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73140982	0.98[ASN][1000 genomes]
rs7431707	0.84[CHB][hapmap]
rs7637684	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs7642172	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs9830749	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs9835427	0.84[CHB][hapmap]
rs9836892	0.84[CHB][hapmap]
rs9850908	0.83[CHB][hapmap]
rs9866706	0.84[CHB][hapmap];0.81[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877360	chr3:115916171-116023990	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	esv1808373	chr3:115952799-115984473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11920943	ZDHHC23	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115958200-115969800	Weak transcription	Brain Angular Gyrus	brain
2	chr3:115961000-115971000	Weak transcription	Brain Anterior Caudate	brain
3	chr3:115962400-115983200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:115963800-115966400	Weak transcription	Fetal Kidney	kidney
5	chr3:115965200-115966200	Enhancers	Fetal Brain Female	brain
6	chr3:115965400-115967600	Enhancers	Rectal Smooth Muscle	rectum
7	chr3:115965600-115966800	Enhancers	Colon Smooth Muscle	Colon
8	chr3:115965600-115970800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr3:115965800-115969800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:115965800-115969800	Weak transcription	Brain Substantia Nigra	brain
11	chr3:115965800-115970800	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:115965800-115983200	Weak transcription	Fetal Brain Male	brain

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