Variant report

Variant	rs3923854
Chromosome Location	chr13:38168300-38168301
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs4448807	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6563562	0.80[YRI][hapmap]
rs6563564	0.80[ASN][1000 genomes]
rs7321492	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7322054	0.81[CEU][hapmap]
rs7322626	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7323378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7324196	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7335884	0.80[ASN][1000 genomes]
rs7336560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7986347	0.96[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9532089	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9532107	0.83[CEU][hapmap]
rs9547956	0.80[YRI][hapmap]
rs9547983	0.80[ASN][1000 genomes]
rs9548033	0.81[CEU][hapmap]
rs9576308	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576311	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576312	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv948975	chr13:37281203-38280430	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1038850	chr13:37820489-38209571	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv34109	chr13:37843819-38276391	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1045716	chr13:37952062-38394595	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv832583	chr13:38030752-38202000	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38135200-38168800	Strong transcription	Osteobl	bone
2	chr13:38139000-38171000	Weak transcription	Fetal Kidney	kidney
3	chr13:38150000-38171000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr13:38150200-38171400	Weak transcription	Colon Smooth Muscle	Colon
5	chr13:38152600-38171200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr13:38155400-38168600	Weak transcription	Fetal Heart	heart
7	chr13:38155400-38168800	Weak transcription	NHLF	lung
8	chr13:38158400-38168800	Weak transcription	Fetal Stomach	stomach
9	chr13:38160600-38168800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr13:38161400-38169200	Weak transcription	NH-A	brain
11	chr13:38162000-38169000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr13:38163200-38171200	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr13:38165800-38182400	Weak transcription	Placenta	Placenta
14	chr13:38166000-38168800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr13:38166400-38168800	Weak transcription	Fetal Lung	lung
16	chr13:38167600-38170000	Active TSS	Fetal Muscle Leg	muscle
17	chr13:38167600-38171200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr13:38168000-38168400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr13:38168000-38169400	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr13:38168200-38168800	Enhancers	Muscle Satellite Cultured Cells	--
21	chr13:38168200-38169200	Enhancers	HUES48 Cell Line	embryonic stem cell

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