Variant report

Variant	rs12639371
Chromosome Location	chr3:99371532-99371533
allele	C/T
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:24)

rs_ID	r²[population]
rs10935892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12493417	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1355765	0.91[CHB][hapmap];0.85[CHD][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.88[TSI][hapmap]
rs1513300	0.91[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.84[TSI][hapmap]
rs16841579	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1708169	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1913235	0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2139932	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2280504	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2280505	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs496664	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs56366097	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62281825	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62281826	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6792355	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7613565	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9758302	0.80[ASN][1000 genomes]
rs9810097	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9815950	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9821695	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9824449	0.91[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes]
rs9824784	0.82[AMR][1000 genomes]
rs9837297	0.82[AMR][1000 genomes]
rs9872048	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12639371	DNAJC5B	trans	parietal	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99365000-99371600	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr3:99366800-99372600	Genic enhancers	Osteobl	bone
3	chr3:99367200-99372000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:99367200-99372000	Weak transcription	Aorta	Aorta
5	chr3:99367200-99372800	Weak transcription	Stomach Mucosa	stomach
6	chr3:99367200-99373400	Weak transcription	Esophagus	oesophagus
7	chr3:99367800-99371800	Weak transcription	NHEK	skin
8	chr3:99367800-99372800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:99368000-99372000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:99369000-99373000	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:99369400-99371600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:99369600-99372600	Enhancers	NHDF-Ad	bronchial
13	chr3:99370000-99372600	Enhancers	Colon Smooth Muscle	Colon
14	chr3:99370000-99372600	Genic enhancers	HSMM	muscle
15	chr3:99370200-99372200	Enhancers	Rectal Smooth Muscle	rectum
16	chr3:99370600-99371600	Enhancers	HSMMtube	muscle
17	chr3:99370600-99372000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:99370600-99372600	Weak transcription	Adipose Nuclei	Adipose
19	chr3:99370600-99372600	Genic enhancers	HUVEC	blood vessel
20	chr3:99370600-99373200	Genic enhancers	Muscle Satellite Cultured Cells	--
21	chr3:99370600-99375400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:99370600-99378000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:99370800-99372000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr3:99370800-99374400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:99370800-99377200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr3:99370800-99377600	Weak transcription	HMEC	breast
27	chr3:99371000-99374000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr3:99371000-99375200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:99371200-99372600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr3:99371200-99374200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:99371400-99371600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:99371400-99371600	Genic enhancers	NH-A	brain
33	chr3:99371400-99374000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:99371400-99377000	Weak transcription	NHLF	lung

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