Variant report

Variant	rs10934188
Chromosome Location	chr3:112540268-112540269
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GTPBP8-2	chr3:112539681-112542106	NONHSAT091199

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10804505	0.82[ASN][1000 genomes]
rs10804506	0.93[AFR][1000 genomes]
rs10934191	0.82[ASN][1000 genomes]
rs1114404	0.84[EUR][1000 genomes]
rs11717778	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12489734	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12695270	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13063847	0.82[ASN][1000 genomes]
rs13100559	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28782232	0.98[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6763318	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6765575	0.98[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6786513	0.81[ASN][1000 genomes]
rs6806976	0.98[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6808135	0.84[EUR][1000 genomes]
rs7609699	0.86[AFR][1000 genomes]
rs7621490	0.81[ASN][1000 genomes]
rs7651207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9288958	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9288964	0.93[AFR][1000 genomes]
rs9809444	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9810246	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9814008	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9823692	0.91[AFR][1000 genomes]
rs9826834	0.93[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9829184	0.82[ASN][1000 genomes]
rs9834599	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9839592	0.90[AFR][1000 genomes]
rs9842637	0.82[ASN][1000 genomes]
rs9865066	0.82[ASN][1000 genomes]
rs9871326	0.84[AFR][1000 genomes]
rs9871605	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv877343	chr3:112470586-112597706	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112533200-112543200	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr3:112537200-112541000	Weak transcription	NHLF	lung
3	chr3:112537800-112543200	Enhancers	Monocytes-CD14+_RO01746	blood
4	chr3:112538600-112541000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr3:112538800-112540400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr3:112539800-112540800	Enhancers	Primary B cells from cord blood	blood
7	chr3:112540000-112541200	Enhancers	Primary B cells from peripheral blood	blood
8	chr3:112540000-112542400	Flanking Active TSS	A549	lung
9	chr3:112540200-112540400	Enhancers	Fetal Intestine Small	intestine
10	chr3:112540200-112541600	Weak transcription	Fetal Kidney	kidney

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