Variant report

Variant	rs58895802
Chromosome Location	chr12:39055755-39055756
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10506123	0.81[EUR][1000 genomes]
rs12578804	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12579377	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12580606	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12580974	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12581826	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12582242	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17126226	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3759140	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57022911	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57240072	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57501178	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58353662	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58654934	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59103577	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59143762	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59914796	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59996410	0.99[ASN][1000 genomes]
rs60195018	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60305068	1.00[ASN][1000 genomes]
rs60958114	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61265542	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7297083	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7316085	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs826842	1.00[EUR][1000 genomes];0.95[ASN][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	esv2422488	chr12:38103874-39070734	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv469356	chr12:38242029-39187408	Weak transcription Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv558574	chr12:38242029-39187408	Strong transcription ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv1039538	chr12:38640895-39180750	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1039821	chr12:38959645-39121578	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv1053316	chr12:38959645-39122853	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1043831	chr12:38979065-39117868	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv541479	chr12:38979065-39117868	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
9	nsv1045040	chr12:39038114-39084094	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:39039800-39055800	Weak transcription	Hela-S3	cervix
2	chr12:39045400-39068000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr12:39046000-39085400	Weak transcription	Aorta	Aorta
4	chr12:39046800-39080400	Weak transcription	Spleen	Spleen
5	chr12:39047200-39055800	Weak transcription	Ovary	ovary
6	chr12:39048000-39056400	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr12:39051600-39080400	Weak transcription	Lung	lung
8	chr12:39051600-39080800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr12:39054600-39071000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr12:39054800-39055800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr12:39055400-39056000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr12:39055400-39056000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
13	chr12:39055400-39056000	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
14	chr12:39055400-39056200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr12:39055400-39056200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr12:39055400-39056200	ZNF genes & repeats	Liver	Liver
17	chr12:39055400-39056200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
18	chr12:39055400-39056200	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
19	chr12:39055400-39056200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
20	chr12:39055400-39058000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
21	chr12:39055600-39055800	ZNF genes & repeats	NHEK	skin
22	chr12:39055600-39056000	ZNF genes & repeats	Colon Smooth Muscle	Colon
23	chr12:39055600-39056200	ZNF genes & repeats	Adipose Nuclei	Adipose

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