Variant report

Variant	rs1925686
Chromosome Location	chr6:87858691-87858692
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:87858576-87858773	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:87855485..87860129-chr6:87863534..87866508,4	K562	blood:
2	chr6:87857695..87859614-chr6:87863756..87866185,3	K562	blood:

Variant related genes	Relation type
ZNF292	TF binding region
ENSG00000272008	Chromatin interaction
ENSG00000188994	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11759727	0.83[EUR][1000 genomes]
rs13201289	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13210074	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16878497	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2025490	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs382956	0.80[EUR][1000 genomes]
rs3857486	0.85[EUR][1000 genomes]
rs3999791	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4235830	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4707344	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4707345	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4707355	0.86[EUR][1000 genomes]
rs6908834	0.85[EUR][1000 genomes]
rs6913159	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6926686	0.83[EUR][1000 genomes]
rs6932641	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6938885	0.83[EUR][1000 genomes]
rs6939075	0.83[EUR][1000 genomes]
rs6940325	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7752414	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7757330	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7758360	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7767245	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs912815	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9294368	0.83[ASN][1000 genomes]
rs9294375	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9294376	0.83[EUR][1000 genomes]
rs9444476	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9444481	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9444486	0.86[EUR][1000 genomes]
rs9444488	0.86[EUR][1000 genomes]
rs9444490	0.85[EUR][1000 genomes]
rs9444491	0.83[EUR][1000 genomes]
rs9450619	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9450623	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450630	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9450636	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9450637	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9450638	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9450639	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9450640	0.84[EUR][1000 genomes]
rs9450646	0.85[EUR][1000 genomes]
rs9450651	0.84[EUR][1000 genomes]
rs9450653	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024751	chr6:87433199-87908721	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv604114	chr6:87816905-87906053	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	esv3366503	chr6:87849282-87862940	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1925686	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs1925686	C6orf162	cis	multi-tissue	Pritchard
rs1925686	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs1925686	C6orf162	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87856400-87860800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:87856600-87860800	Weak transcription	GM12878-XiMat	blood
3	chr6:87858600-87861200	Weak transcription	HUVEC	blood vessel

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