Variant report

Variant	rs9861322
Chromosome Location	chr3:158211661-158211662
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10513526	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs10936138	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12486595	0.80[ASN][1000 genomes]
rs12487004	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs12487873	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs12487933	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs12491983	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs12496739	0.85[ASN][1000 genomes]
rs12631828	0.87[ASN][1000 genomes]
rs12631832	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs12634966	0.86[CHB][hapmap]
rs12637436	0.87[ASN][1000 genomes]
rs12638258	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs1320239	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs1435638	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1435639	0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs16829072	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs16829079	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2363654	1.00[CHB][hapmap];0.91[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2363657	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs28669117	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4522814	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs5025785	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56130447	0.87[ASN][1000 genomes]
rs59112782	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs59502510	0.80[ASN][1000 genomes]
rs60921365	0.87[ASN][1000 genomes]
rs67074371	0.94[ASN][1000 genomes]
rs6762774	0.80[AFR][1000 genomes]
rs6769314	1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs6770005	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6775960	0.90[YRI][hapmap]
rs6789607	0.80[YRI][hapmap]
rs6795710	0.80[ASN][1000 genomes]
rs6797871	0.80[ASN][1000 genomes]
rs6804401	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6810324	0.97[YRI][hapmap]
rs73020715	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs73020720	0.84[ASN][1000 genomes]
rs73022714	0.80[ASN][1000 genomes]
rs73022726	0.80[ASN][1000 genomes]
rs73022742	0.80[ASN][1000 genomes]
rs73172118	0.87[ASN][1000 genomes]
rs73172122	0.87[ASN][1000 genomes]
rs73172127	0.94[ASN][1000 genomes]
rs7618252	0.90[YRI][hapmap]
rs7619886	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs939115	0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs939116	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9681065	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9810400	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs9811282	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9812307	1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9815348	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9819130	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9830994	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9849688	0.85[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9854620	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9858498	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[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	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1014381	chr3:158070451-158350118	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1004124	chr3:158146715-158808638	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1013046	chr3:158176582-158244606	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1014557	chr3:158176582-158251602	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv877690	chr3:158184263-158296916	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv2763312	chr3:158193512-158420588	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9861322	GFM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158207200-158221400	Weak transcription	Ovary	ovary
2	chr3:158211200-158212600	Weak transcription	K562	blood
3	chr3:158211200-158215200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:158211600-158221400	Weak transcription	Gastric	stomach

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