Variant report

Variant	rs641461
Chromosome Location	chr3:99386364-99386365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1578796	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1578797	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16841679	0.82[YRI][hapmap]
rs1708168	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1717608	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1717610	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2458456	0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs2944620	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs486688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs594827	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs596300	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs621061	0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs639355	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs648006	0.85[YRI][hapmap]
rs681819	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs641461	SENP7	cis	parietal	SCAN
rs641461	C3orf26	cis	multi-tissue	Pritchard

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99379200-99388600	Weak transcription	NH-A	brain
2	chr3:99382000-99390200	Genic enhancers	Muscle Satellite Cultured Cells	--
3	chr3:99383800-99389400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:99384200-99405600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:99385000-99386800	Genic enhancers	HSMM	muscle
6	chr3:99385200-99386600	Enhancers	HSMMtube	muscle
7	chr3:99385200-99393200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:99385400-99388400	Weak transcription	NHEK	skin
9	chr3:99385400-99388600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:99385400-99388600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:99385400-99389800	Enhancers	NHLF	lung
12	chr3:99385400-99392600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:99385400-99392600	Weak transcription	HMEC	breast
14	chr3:99385400-99393000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr3:99385600-99386800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:99385600-99387400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:99385800-99386400	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:99385800-99386600	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr3:99385800-99387000	Weak transcription	Adipose Nuclei	Adipose
20	chr3:99386000-99386800	Genic enhancers	NHDF-Ad	bronchial
21	chr3:99386200-99386400	Flanking Active TSS	HUVEC	blood vessel
22	chr3:99386200-99386600	Enhancers	Aorta	Aorta
23	chr3:99386200-99386800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:99386200-99388200	Enhancers	Osteobl	bone
25	chr3:99386200-99391000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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