Variant report

Variant	rs6902553
Chromosome Location	chr6:14977206-14977207
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DTNBP1-5	chr6:14977019-14977549	XLOC_005618
2	lnc-DTNBP1-5	chr6:14976467-14977549	NONHSAT107859

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1259064	0.87[EUR][1000 genomes]
rs1259065	0.86[EUR][1000 genomes]
rs1259066	0.84[EUR][1000 genomes]
rs1259071	0.82[EUR][1000 genomes]
rs1259072	0.81[EUR][1000 genomes]
rs1747512	0.89[EUR][1000 genomes]
rs2147203	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2327870	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs425274	0.87[EUR][1000 genomes]
rs432518	0.89[EUR][1000 genomes]
rs446638	0.88[EUR][1000 genomes]
rs448266	0.88[EUR][1000 genomes]
rs453451	0.89[EUR][1000 genomes]
rs453850	0.88[EUR][1000 genomes]
rs4712244	0.88[EUR][1000 genomes]
rs4715951	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4715952	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67121944	0.89[EUR][1000 genomes]
rs6918145	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7741200	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7750114	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753140	0.89[EUR][1000 genomes]
rs863908	0.87[EUR][1000 genomes]
rs927628	0.81[EUR][1000 genomes]
rs9367854	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9370788	0.89[EUR][1000 genomes]
rs9383006	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9396542	0.88[EUR][1000 genomes]
rs9396544	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9396547	0.89[EUR][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	nsv1031668	chr6:14774036-15044308	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538138	chr6:14774036-15044308	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883453	chr6:14926320-15001506	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6902553	TBC1D7	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:14968600-14986400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:14975200-14977400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:14975800-14983800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:14976000-14983800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:14976000-14984000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:14976000-14984200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:14976000-14993000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:14976000-15006400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:14976200-14985800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:14977000-14978000	Weak transcription	Liver	Liver
11	chr6:14977200-14977400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:14977200-14978200	Weak transcription	Monocytes-CD14+_RO01746	blood

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