Variant report

Variant	rs2143733
Chromosome Location	chr6:39061496-39061497
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs179271	0.85[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs179272	0.81[CEU][hapmap]
rs2268640	0.90[CHB][hapmap]
rs228804	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2746304	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs6458094	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9380828	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9470967	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv462919	chr6:39050384-39062990	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv602963	chr6:39050384-39062990	Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv3473955	chr6:39060863-39062877	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3473956	chr6:39060863-39062877	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3364145	chr6:39060955-39062711	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39021200-39072000	Weak transcription	Gastric	stomach
2	chr6:39027400-39073000	Weak transcription	Pancreas	Pancrea
3	chr6:39043400-39082000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:39053000-39072400	Weak transcription	Brain Germinal Matrix	brain
5	chr6:39055200-39069800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:39058000-39068200	Weak transcription	Thymus	Thymus
7	chr6:39058400-39071200	Weak transcription	Psoas Muscle	Psoas
8	chr6:39058400-39072000	Weak transcription	Left Ventricle	heart
9	chr6:39058400-39072600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:39058400-39073000	Weak transcription	Lung	lung
11	chr6:39059800-39062600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:39060400-39073200	Weak transcription	Fetal Heart	heart
13	chr6:39060600-39063800	Enhancers	Liver	Liver
14	chr6:39060600-39072800	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr6:39060800-39062600	Enhancers	Fetal Lung	lung
16	chr6:39061200-39061800	Enhancers	HepG2	liver
17	chr6:39061400-39061600	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:39061400-39061600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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