Variant report

Variant	rs10962894
Chromosome Location	chr9:1726601-1726602
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10115900	0.88[EUR][1000 genomes]
rs10120074	0.86[EUR][1000 genomes]
rs10120767	0.85[EUR][1000 genomes]
rs10738479	0.80[ASN][1000 genomes]
rs10756854	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10810734	1.00[ASN][1000 genomes]
rs10810799	0.80[ASN][1000 genomes]
rs10810814	0.81[ASN][1000 genomes]
rs10810815	0.82[ASN][1000 genomes]
rs10962874	0.86[ASN][1000 genomes]
rs10962880	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10962888	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962913	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10962915	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10963188	0.82[ASN][1000 genomes]
rs12344952	0.88[EUR][1000 genomes]
rs12348380	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12550866	0.88[EUR][1000 genomes]
rs12552128	0.88[EUR][1000 genomes]
rs13288056	0.86[EUR][1000 genomes]
rs13289666	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1415122	0.80[ASN][1000 genomes]
rs1817384	0.81[ASN][1000 genomes]
rs1817385	0.81[ASN][1000 genomes]
rs2077415	0.88[EUR][1000 genomes]
rs28411348	0.87[EUR][1000 genomes]
rs28595403	0.86[EUR][1000 genomes]
rs3852104	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3889068	0.88[EUR][1000 genomes]
rs4083723	0.82[ASN][1000 genomes]
rs4302893	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4304369	0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4304370	0.81[AFR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4410953	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4740643	0.88[EUR][1000 genomes]
rs4741585	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4741586	0.88[EUR][1000 genomes]
rs4741599	0.80[ASN][1000 genomes]
rs4741600	0.80[ASN][1000 genomes]
rs4741603	0.80[ASN][1000 genomes]
rs4741604	0.80[ASN][1000 genomes]
rs56062752	0.98[ASN][1000 genomes]
rs6475112	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6475119	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7023185	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7023240	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7026299	0.80[ASN][1000 genomes]
rs7031972	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7043054	0.85[EUR][1000 genomes]
rs747048	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7849487	0.82[ASN][1000 genomes]
rs7864003	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7870721	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs869627	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs899125	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752273	chr9:1062218-1824888	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1026043	chr9:1079462-1732502	Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv539909	chr9:1079462-1732502	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1016148	chr9:1457605-2361750	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active 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	17 gene(s)	inside rSNPs	diseases
5	nsv539916	chr9:1457605-2361750	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv892035	chr9:1556054-1823605	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1016764	chr9:1564704-1736070	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv1021712	chr9:1647840-2216839	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv539921	chr9:1647840-2216839	Bivalent Enhancer Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv892040	chr9:1672167-1759486	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv892041	chr9:1690810-1759486	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv613076	chr9:1699307-1747566	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv1018906	chr9:1702711-1743631	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv539922	chr9:1702711-1743631	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv892042	chr9:1721385-1762597	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1024481	chr9:1722319-1758705	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1025829	chr9:1722319-1759811	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1015149	chr9:1722601-1759811	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv1030725	chr9:1723364-1760672	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
20	esv2764130	chr9:1723376-1778025	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10962894	KIAA1432	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1718000-1736800	Weak transcription	Adipose Nuclei	Adipose
2	chr9:1722400-1727200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr9:1722600-1727400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr9:1726000-1727200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr9:1726600-1726800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:1726600-1727000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:1726600-1727200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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