Variant report

Variant	rs56412095
Chromosome Location	chr12:48720360-48720361
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:48720103..48722242-chr12:48743516..48745701,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000257735	Chromatin interaction
ENSG00000167528	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1004746	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1004806	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10506277	0.87[AMR][1000 genomes]
rs10506278	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10506279	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10506280	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11834109	1.00[EUR][1000 genomes]
rs17122906	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17122918	0.93[EUR][1000 genomes]
rs17122920	0.93[EUR][1000 genomes]
rs17224674	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17225261	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17225366	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17225751	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17226359	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17226506	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17226723	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17824200	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17824705	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17824989	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17825013	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55655640	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55684363	0.89[EUR][1000 genomes]
rs55763362	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55794326	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55851988	1.00[ASN][1000 genomes]
rs55854069	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55920439	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56048326	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56084718	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56110736	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56116946	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56205628	0.87[AMR][1000 genomes]
rs56271815	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56378318	0.89[EUR][1000 genomes]
rs56378908	0.87[AMR][1000 genomes]
rs56383074	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56389692	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59724592	0.93[EUR][1000 genomes]
rs6580666	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs751315	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs751316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7966782	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758307	chr12:48429702-48825499	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759898	chr12:48429702-48825499	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv8971	chr12:48536526-48758501	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	esv34439	chr12:48541757-48779562	Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
5	esv2757502	chr12:48547128-48779562	Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	nsv899064	chr12:48664989-48721832	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv427911	chr12:48670336-48979396	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
8	nsv832402	chr12:48686761-48851020	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
9	nsv826362	chr12:48693048-48768853	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56412095	ZNF641	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:48720200-48720400	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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