Variant report

Variant	rs10115900
Chromosome Location	chr9:1743824-1743825
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10120074	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10120765	0.86[ASN][1000 genomes]
rs10120767	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10738479	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10756854	0.87[EUR][1000 genomes]
rs10810747	0.86[ASN][1000 genomes]
rs10810794	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10810799	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10810807	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810809	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810814	0.82[EUR][1000 genomes]
rs10962888	0.86[EUR][1000 genomes]
rs10962894	0.88[EUR][1000 genomes]
rs10962913	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10962915	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10963124	0.83[EUR][1000 genomes]
rs10963145	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10963156	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10963164	0.82[ASN][1000 genomes]
rs12344952	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348380	0.88[EUR][1000 genomes]
rs12550866	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12552128	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12682830	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13288056	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13289666	0.85[EUR][1000 genomes]
rs1415122	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1932855	0.86[ASN][1000 genomes]
rs1932856	0.86[ASN][1000 genomes]
rs2077415	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2077416	0.86[ASN][1000 genomes]
rs28411348	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28478918	0.86[ASN][1000 genomes]
rs28595403	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28655642	0.86[ASN][1000 genomes]
rs34439728	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3845186	0.86[ASN][1000 genomes]
rs3852104	0.97[AFR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3889068	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4014158	0.81[ASN][1000 genomes]
rs4302893	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4304369	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4304370	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4410953	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4740640	0.86[ASN][1000 genomes]
rs4740643	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4740647	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4741585	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4741586	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4741587	0.86[ASN][1000 genomes]
rs4741588	0.86[ASN][1000 genomes]
rs4741599	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4741600	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4741603	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4741604	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58583714	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6475112	0.88[EUR][1000 genomes]
rs6475119	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6475130	0.86[ASN][1000 genomes]
rs6475131	0.86[ASN][1000 genomes]
rs6475132	0.86[ASN][1000 genomes]
rs6475133	0.86[ASN][1000 genomes]
rs7019705	0.86[ASN][1000 genomes]
rs7023185	0.87[EUR][1000 genomes]
rs7023240	0.89[EUR][1000 genomes]
rs7026299	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7030295	0.85[ASN][1000 genomes]
rs7031972	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7032946	0.81[ASN][1000 genomes]
rs7043054	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7044554	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7847817	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7849487	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7857859	0.86[ASN][1000 genomes]
rs7864003	0.84[EUR][1000 genomes]
rs7870721	0.88[EUR][1000 genomes]
rs7873912	0.86[ASN][1000 genomes]
rs869627	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs899125	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9695708	0.86[ASN][1000 genomes]
rs9696140	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 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	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
3	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
4	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
5	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
6	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
7	nsv892040	chr9:1672167-1759486	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv892041	chr9:1690810-1759486	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv613076	chr9:1699307-1747566	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv892042	chr9:1721385-1762597	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1024481	chr9:1722319-1758705	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1025829	chr9:1722319-1759811	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1015149	chr9:1722601-1759811	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1030725	chr9:1723364-1760672	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	esv2764130	chr9:1723376-1778025	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv466067	chr9:1731076-1759811	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
17	nsv613077	chr9:1731076-1759811	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10115900	KIAA1432	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1742600-1745200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:1743600-1744200	Enhancers	Fetal Brain Female	brain

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