Variant report

Variant	rs9352839
Chromosome Location	chr6:81151841-81151842
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BCKDHB-1	chr6:81151577-81153255	XLOC_005365

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1115232	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11754109	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754801	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754815	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12055682	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437027	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17810414	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1812698	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2217941	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56976043	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58228181	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927599	0.89[ASN][1000 genomes]
rs6927601	0.93[ASN][1000 genomes]
rs7738642	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7742949	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7765467	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875466	1.00[YRI][hapmap]
rs9344000	0.94[ASN][1000 genomes]
rs9344002	0.80[CEU][hapmap];0.85[CHB][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9344003	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9344004	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9344005	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9350859	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9352835	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9352836	0.94[ASN][1000 genomes]
rs9361615	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9361621	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs983209	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs983211	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][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	nsv531333	chr6:81042427-81836484	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1019670	chr6:81086504-81569984	ZNF genes & repeats Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv915714	chr6:81134888-81366749	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1018028	chr6:81138011-81201697	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:81142400-81163800	Weak transcription	Ovary	ovary
2	chr6:81143400-81156000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:81143600-81152400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:81143600-81155600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:81146600-81156000	Weak transcription	Pancreas	Pancrea
6	chr6:81150000-81152200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:81150000-81152200	Weak transcription	NHDF-Ad	bronchial
8	chr6:81150200-81152200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:81150400-81152400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr6:81150600-81152200	Weak transcription	NH-A	brain
11	chr6:81150600-81152400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:81150800-81152000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:81150800-81152200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:81150800-81155800	Weak transcription	HSMM	muscle
15	chr6:81150800-81159600	Weak transcription	NHEK	skin
16	chr6:81150800-81162800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:81151000-81152200	Weak transcription	HMEC	breast
18	chr6:81151600-81154600	Weak transcription	Fetal Intestine Small	intestine
19	chr6:81151800-81154800	Weak transcription	Fetal Intestine Large	intestine

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