Variant report

Variant	rs7937023
Chromosome Location	chr11:64170206-64170207
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10792432	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10897503	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1662189	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2083711	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4930353	0.82[CEU][hapmap]
rs521319	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs548333	0.95[CEU][hapmap];0.88[GIH][hapmap];0.85[EUR][1000 genomes]
rs561667	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs562560	0.86[EUR][1000 genomes]
rs564163	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs566409	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs577304	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61884054	0.87[EUR][1000 genomes]
rs653565	0.81[GIH][hapmap]
rs653578	0.81[GIH][hapmap]
rs7936543	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7937125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7951702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv897682	chr11:63999529-64170500	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
2	nsv832187	chr11:64121969-64312300	Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs7937023	SLC25A45	cis	parietal	SCAN
rs7937023	CCS	cis	cerebellum	SCAN
rs7937023	CD6	cis	cerebellum	SCAN
rs7937023	PPP1CA	cis	parietal	SCAN
rs7937023	FKBP2	cis	parietal	SCAN
rs7937023	POLD4	cis	cerebellum	SCAN
rs7937023	RPS6KA4	cis	multi-tissue	Pritchard
rs7937023	TRMT112	cis	parietal	SCAN
rs7937023	CCDC88B	cis	cerebellum	SCAN
rs7937023	KDM2A	cis	parietal	SCAN
rs7937023	FKBP2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64164000-64170600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr11:64164400-64171800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:64165800-64171400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr11:64168000-64173400	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr11:64168200-64173000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:64168400-64173600	Weak transcription	Spleen	Spleen
7	chr11:64169000-64171400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr11:64169200-64171400	Weak transcription	Monocytes-CD14+_RO01746	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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