Variant report

Variant	rs12629799
Chromosome Location	chr3:79377010-79377011
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11127642	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs11918896	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs12629261	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs12635896	0.80[JPT][hapmap]
rs12638565	0.89[ASN][1000 genomes]
rs13067596	0.89[CHB][hapmap];0.80[JPT][hapmap]
rs13073607	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs13084290	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs1387668	0.84[ASN][1000 genomes]
rs1489844	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs1489849	0.87[JPT][hapmap]
rs1489850	1.00[CHB][hapmap];0.89[CHD][hapmap];0.90[JPT][hapmap]
rs1565345	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs17044180	0.94[ASW][hapmap];0.85[YRI][hapmap]
rs17395749	0.84[ASN][1000 genomes]
rs2130377	1.00[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs4411849	0.88[CHB][hapmap]
rs57012643	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6548616	0.87[JPT][hapmap]
rs6764105	0.82[ASN][1000 genomes]
rs6766006	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs6768393	0.80[YRI][hapmap]
rs6782763	1.00[CHB][hapmap];0.93[JPT][hapmap];0.92[ASN][1000 genomes]
rs6785230	0.86[ASN][1000 genomes]
rs6788829	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs6788970	0.89[ASN][1000 genomes]
rs6801558	1.00[CHB][hapmap];0.83[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs6801676	0.81[AFR][1000 genomes]
rs716681	0.85[YRI][hapmap]
rs73110997	0.86[ASN][1000 genomes]
rs73112706	0.84[ASN][1000 genomes]
rs73122554	0.84[ASN][1000 genomes]
rs73122569	0.84[ASN][1000 genomes]
rs73122578	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73122579	0.87[ASN][1000 genomes]
rs73122586	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73122590	0.87[ASN][1000 genomes]
rs73122600	0.92[ASN][1000 genomes]
rs73125241	0.89[ASN][1000 genomes]
rs73125242	0.89[ASN][1000 genomes]
rs73125244	0.89[ASN][1000 genomes]
rs73125248	0.89[ASN][1000 genomes]
rs7610397	1.00[CHB][hapmap];0.89[CHD][hapmap];0.93[JPT][hapmap]
rs7618575	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs902164	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs964137	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9815951	0.83[YRI][hapmap]
rs9832396	0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9842630	0.80[JPT][hapmap]
rs9855638	0.87[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763281	chr3:79246361-79489765	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv460727	chr3:79264611-79406519	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv590736	chr3:79264611-79406519	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv460730	chr3:79286801-79411014	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv590737	chr3:79286801-79411014	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79374200-79380000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:79375800-79378600	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:79376000-79377400	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:79376000-79377800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:79376000-79378200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr3:79376000-79378200	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr3:79376000-79378600	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:79376000-79378600	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:79376200-79378200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:79377000-79385400	Weak transcription	H1 Cell Line	embryonic stem cell

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