Variant report

Variant	rs10875765
Chromosome Location	chr12:48583632-48583633
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:48583311..48584177-chr12:48591097..48592094,2	K562	blood:
2	chr12:48578276..48580987-chr12:48583534..48585807,2	K562	blood:
3	chr12:48582939..48585251-chr12:48585602..48588583,3	K562	blood:
4	chr12:48336245..48336757-chr12:48583257..48583914,2	K562	blood:
5	chr12:48583302..48583874-chr12:48848390..48849077,2	MCF-7	breast:
6	chr12:48582939..48584871-chr12:48586838..48589561,2	K562	blood:
7	chr12:48583004..48587511-chr12:48589337..48593893,5	K562	blood:
8	chr12:48583505..48585378-chr12:48585975..48588176,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C12orf68-2	chr12:48583132-48584990	NONHSAT027988

No data

Variant related genes	Relation type
ENSG00000269514	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10875752	0.87[ASN][1000 genomes]
rs10875754	0.86[ASN][1000 genomes]
rs10875759	0.93[ASN][1000 genomes]
rs10875761	0.93[ASN][1000 genomes]
rs10875766	0.90[ASN][1000 genomes]
rs11168434	0.89[ASN][1000 genomes]
rs11168435	0.89[ASN][1000 genomes]
rs11168438	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11168439	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11168442	0.99[ASN][1000 genomes]
rs11168443	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11168444	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11168445	0.99[ASN][1000 genomes]
rs11168446	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11168447	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11168448	0.99[ASN][1000 genomes]
rs11168453	0.99[ASN][1000 genomes]
rs11168454	0.99[ASN][1000 genomes]
rs2171643	0.98[ASN][1000 genomes]
rs56097189	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59537300	0.98[ASN][1000 genomes]
rs6580658	0.92[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs66507954	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7132898	0.92[ASN][1000 genomes]
rs7133274	0.99[ASN][1000 genomes]
rs7136243	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7136782	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7136788	0.98[ASN][1000 genomes]
rs73105950	0.99[ASN][1000 genomes]
rs73304926	0.99[ASN][1000 genomes]
rs7484942	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7962390	0.98[ASN][1000 genomes]
rs7962569	0.98[ASN][1000 genomes]
rs8181670	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	esv33956	chr12:48565643-48645561	Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10875765	ZNF641	cis	Muscle Skeletal	GTEx
rs10875765	C12orf68	cis	Esophagus Mucosa	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:48580000-48591000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr12:48580400-48583800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr12:48580400-48585600	Weak transcription	Esophagus	oesophagus
4	chr12:48582000-48584000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr12:48583000-48590200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr12:48583200-48583800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr12:48583200-48584000	Enhancers	Brain Angular Gyrus	brain
8	chr12:48583200-48584200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr12:48583400-48583800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr12:48583400-48583800	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr12:48583600-48583800	Enhancers	Hela-S3	cervix
12	chr12:48583600-48583800	Enhancers	HMEC	breast
13	chr12:48583600-48583800	Flanking Active TSS	NHEK	skin
14	chr12:48583600-48584000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr12:48583600-48585400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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