Variant report

Variant	rs13002109
Chromosome Location	chr2:63346702-63346703
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10173115	0.88[ASW][hapmap];0.89[GIH][hapmap];0.93[LWK][hapmap];0.84[AFR][1000 genomes]
rs1025131	0.92[YRI][hapmap]
rs11890276	0.92[YRI][hapmap];0.85[AFR][1000 genomes]
rs12618946	0.84[AFR][1000 genomes]
rs12993804	0.82[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs13027594	0.88[YRI][hapmap];0.84[AFR][1000 genomes]
rs13032049	0.81[ASN][1000 genomes]
rs13034195	1.00[YRI][hapmap]
rs2162012	0.86[AFR][1000 genomes]
rs2162014	0.82[CHB][hapmap];0.87[GIH][hapmap];0.82[MKK][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes]
rs4671457	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs4671463	0.92[YRI][hapmap]
rs6723846	0.86[AFR][1000 genomes]
rs6734827	0.86[AFR][1000 genomes]
rs6754628	0.87[AFR][1000 genomes]
rs7581341	0.81[EUR][1000 genomes]
rs7603593	0.95[YRI][hapmap]
rs972721	0.87[CHB][hapmap];0.89[CHD][hapmap]

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	nsv535767	chr2:62461582-63413596	Bivalent Enhancer Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	esv3417336	chr2:62957866-63749654	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1006848	chr2:63061816-63631407	Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv2756598	chr2:63085848-63491438	Strong transcription Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	esv3340700	chr2:63127412-63534998	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1004678	chr2:63230722-63562484	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13002109	WDPCP	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:63342600-63349600	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr2:63343600-63349600	Weak transcription	Primary T cells from cord blood	blood
3	chr2:63344200-63348000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr2:63344400-63350600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr2:63344400-63360400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:63344800-63350200	Weak transcription	Fetal Stomach	stomach
7	chr2:63345800-63348000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr2:63346000-63346800	Strong transcription	Primary hematopoietic stem cells	blood
9	chr2:63346000-63348600	Weak transcription	Right Ventricle	heart
10	chr2:63346400-63346800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr2:63346400-63347200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr2:63346400-63348000	Weak transcription	Fetal Brain Female	brain
13	chr2:63346400-63348200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr2:63346400-63348200	Weak transcription	Brain Hippocampus Middle	brain
15	chr2:63346400-63350000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr2:63346600-63347000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:63346600-63347800	Weak transcription	Aorta	Aorta
18	chr2:63346600-63348000	Weak transcription	Adipose Nuclei	Adipose
19	chr2:63346600-63348600	Weak transcription	Ovary	ovary
20	chr2:63346600-63399200	Weak transcription	Left Ventricle	heart

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