Variant report

Variant	rs2847655
Chromosome Location	chr11:59865671-59865672
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs107903	0.85[CEU][hapmap]
rs10897009	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11230147	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11230153	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11230155	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11230160	1.00[CEU][hapmap];0.95[TSI][hapmap]
rs11230161	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs1125357	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11600716	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11605427	0.89[CEU][hapmap];1.00[YRI][hapmap]
rs12226022	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12453	0.89[CEU][hapmap];0.81[TSI][hapmap]
rs1303615	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs1303621	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs1441586	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs17528859	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17529983	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17602572	0.89[CEU][hapmap]
rs1786137	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1813217	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2070970	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2165525	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2278867	0.88[CEU][hapmap]
rs2583471	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2583476	0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2847663	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2847664	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2847666	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2847667	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2847668	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2855017	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs476722	0.85[CEU][hapmap]
rs487997	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4939311	1.00[CEU][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4939312	1.00[CEU][hapmap];0.85[MEX][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4939314	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs498100	1.00[YRI][hapmap]
rs502419	0.85[CEU][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs502581	0.85[CEU][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs512495	0.82[EUR][1000 genomes]
rs514266	0.80[EUR][1000 genomes]
rs516478	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs521952	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs525794	0.85[CEU][hapmap];0.81[TSI][hapmap]
rs540170	0.85[CEU][hapmap];0.83[TSI][hapmap];0.80[EUR][1000 genomes]
rs555635	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs556917	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs55847558	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs563803	0.80[EUR][1000 genomes]
rs564912	0.92[CEU][hapmap]
rs569046	0.84[CEU][hapmap]
rs574695	0.85[CEU][hapmap];0.83[TSI][hapmap];0.80[EUR][1000 genomes]
rs574704	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs574798	0.80[EUR][1000 genomes]
rs580817	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs581133	0.85[CEU][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs583296	0.85[CEU][hapmap]
rs595481	0.84[CEU][hapmap]
rs602396	0.85[CEU][hapmap]
rs606588	0.87[CEU][hapmap]
rs617916	0.84[CEU][hapmap]
rs61901691	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs652354	0.82[CEU][hapmap]
rs684961	0.85[CEU][hapmap]
rs688030	0.88[CEU][hapmap]
rs7124974	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7933202	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7935829	0.89[CEU][hapmap];0.81[TSI][hapmap]
rs920573	1.00[CEU][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs983392	1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832173	chr11:59788884-59940560	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv468579	chr11:59814287-59975400	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv555150	chr11:59814287-59975400	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2847655	FAM111A	cis	parietal	SCAN
rs2847655	POLR2G	cis	cerebellum	SCAN
rs2847655	SCGB2A2	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59864800-59866400	Enhancers	Stomach Mucosa	stomach
2	chr11:59864800-59866600	Enhancers	Duodenum Mucosa	Duodenum
3	chr11:59865400-59866600	Enhancers	HepG2	liver
4	chr11:59865400-59870200	Enhancers	HUVEC	blood vessel
5	chr11:59865600-59865800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr11:59865600-59865800	Enhancers	Small Intestine	intestine
7	chr11:59865600-59866200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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