Variant report

Variant	rs1006988
Chromosome Location	chr1:85883320-85883321
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1001604	0.86[AFR][1000 genomes]
rs1006989	0.94[CEU][hapmap];0.84[AMR][1000 genomes]
rs10489513	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs10873702	0.82[CEU][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes]
rs11161606	0.83[YRI][hapmap]
rs1146374	0.88[EUR][1000 genomes]
rs1146383	0.88[CEU][hapmap]
rs12044537	0.84[YRI][hapmap]
rs1523994	0.84[CEU][hapmap];0.81[JPT][hapmap];0.90[EUR][1000 genomes]
rs1975755	0.84[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes]
rs2037594	0.94[CEU][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs233053	0.83[YRI][hapmap]
rs3920521	0.82[AFR][1000 genomes]
rs4949900	0.84[YRI][hapmap];0.81[AFR][1000 genomes]
rs539714	0.88[CEU][hapmap]
rs561422	0.85[EUR][1000 genomes]
rs6576761	0.82[AFR][1000 genomes]
rs6576763	0.81[AFR][1000 genomes]
rs729655	0.85[AFR][1000 genomes]
rs7521189	0.81[YRI][hapmap]
rs7525786	0.92[AFR][1000 genomes]
rs7539738	0.84[AMR][1000 genomes]
rs7546931	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7555670	0.94[CEU][hapmap];0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv830470	chr1:85820775-86014080	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1008877	chr1:85843238-85897570	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85873600-85885000	Weak transcription	Fetal Intestine Large	intestine
2	chr1:85873800-85885400	Weak transcription	Fetal Stomach	stomach
3	chr1:85873800-85887600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:85874000-85903800	Weak transcription	NHLF	lung
5	chr1:85874200-85903600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr1:85874400-85903600	Weak transcription	HepG2	liver
7	chr1:85874400-85904200	Weak transcription	NH-A	brain
8	chr1:85875400-85885600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:85877200-85885600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr1:85877600-85885800	Weak transcription	HSMMtube	muscle
11	chr1:85878000-85883800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr1:85879200-85885600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr1:85880400-85884400	Weak transcription	Brain Hippocampus Middle	brain
14	chr1:85880400-85884400	Weak transcription	NHDF-Ad	bronchial
15	chr1:85880400-85887600	Weak transcription	Osteobl	bone
16	chr1:85880600-85884600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:85882400-85884000	Enhancers	HUVEC	blood vessel
18	chr1:85882400-85885000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr1:85883000-85885000	Weak transcription	Fetal Intestine Small	intestine
20	chr1:85883200-85883800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr1:85883200-85884200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:85883200-85884200	Weak transcription	Ovary	ovary
23	chr1:85883200-85884400	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr1:85883200-85885400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr1:85883200-85885600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:85883200-85887000	Weak transcription	HSMM	muscle
27	chr1:85883200-85893400	Weak transcription	Aorta	Aorta

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