Variant report

Variant	rs6921039
Chromosome Location	chr6:70755533-70755534
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:70747430..70749760-chr6:70755269..70757566,2	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10455227	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs10945193	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10945194	1.00[ASW][hapmap];0.92[GIH][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.98[MKK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs11965784	0.80[ASN][1000 genomes]
rs11966810	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs12189656	0.84[ASW][hapmap];0.82[AFR][1000 genomes]
rs12190028	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12190080	0.96[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12193795	1.00[ASW][hapmap];0.90[LWK][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs12193977	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs12194223	0.82[CEU][hapmap];0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12197024	0.96[AFR][1000 genomes]
rs12198026	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12199202	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs12199349	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs12203835	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12204245	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs12206771	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs12206806	0.92[GIH][hapmap];0.84[MEX][hapmap];0.83[MKK][hapmap];0.85[TSI][hapmap]
rs12212536	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs17711463	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs1885338	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2068499	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs2224514	0.81[MEX][hapmap]
rs28830576	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3793043	0.80[ASN][1000 genomes]
rs3793046	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs3806000	0.81[MEX][hapmap]
rs3806009	0.93[CEU][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes]
rs3806013	0.82[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3806017	0.82[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3806020	0.80[ASN][1000 genomes]
rs3806022	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3806025	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs3828769	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs55927183	0.80[ASN][1000 genomes]
rs56072304	0.80[ASN][1000 genomes]
rs6901226	0.96[AFR][1000 genomes]
rs6909759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6936017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937838	0.81[MEX][hapmap]
rs716410	0.82[CEU][hapmap];0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026151	chr6:70621616-70946967	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv470832	chr6:70654657-70767756	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv933674	chr6:70663616-70973112	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1026836	chr6:70727747-70849014	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv525985	chr6:70728202-70766504	Strong transcription Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv932111	chr6:70736835-71633094	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	nsv886142	chr6:70741209-71251421	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv830683	chr6:70743422-70941190	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6921039	LMBRD1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70749400-70758400	Weak transcription	GM12878-XiMat	blood
2	chr6:70752000-70756400	Strong transcription	Primary B cells from cord blood	blood
3	chr6:70752600-70756200	Strong transcription	Primary B cells from peripheral blood	blood

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