Variant report

Variant	rs12644034
Chromosome Location	chr4:93743371-93743372
allele	C/T
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	chr4:93743045-93743914	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr4:93743264-93743667	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr4:93743297-93743629	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr4:93743353-93743675	H1-hESC	embryonic stem cell:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-9B6.1.1-6	chr4:93743137-93744069	NONHSAT097434

Variant related genes	Relation type
GRID2	TF binding region

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1079758	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11931529	0.86[ASN][1000 genomes]
rs11934113	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11942563	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11947493	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12643216	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12643876	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12644363	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12647035	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12647036	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12647836	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12651281	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17019868	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17019874	0.84[ASN][1000 genomes]
rs17019876	0.84[ASN][1000 genomes]
rs17019889	0.94[ASN][1000 genomes]
rs17019896	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17019899	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17019901	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34786120	0.84[ASN][1000 genomes]
rs4328881	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62310232	0.84[ASN][1000 genomes]
rs62310235	0.84[ASN][1000 genomes]
rs62310239	0.86[ASN][1000 genomes]
rs62310240	0.93[ASN][1000 genomes]
rs62310241	0.86[ASN][1000 genomes]
rs6834275	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6852643	0.86[ASN][1000 genomes]
rs72663556	0.84[ASN][1000 genomes]
rs72663568	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003350	chr4:93566813-93821353	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1011652	chr4:93618181-93891388	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1005999	chr4:93637367-93754387	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv916948	chr4:93657711-93786768	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv916371	chr4:93673026-93994807	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv427688	chr4:93680331-93830824	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv879611	chr4:93707288-93987251	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:93709200-93752000	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr4:93738600-93753600	Weak transcription	H9 Cell Line	embryonic stem cell

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