Variant report

Variant	rs913033
Chromosome Location	chr10:91569687-91569688
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 111 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10430645	0.88[CEU][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap]
rs10430646	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs1048057	0.87[CEU][hapmap]
rs10509579	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap]
rs1062465	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs10748527	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10785896	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs10785903	0.96[EUR][1000 genomes]
rs10785904	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10785905	0.99[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs10785906	0.81[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs10785907	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10881614	0.82[CEU][hapmap]
rs10881618	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs10881619	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs10881628	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs10881629	0.88[CEU][hapmap]
rs10881631	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs10881645	0.84[JPT][hapmap]
rs10881646	0.81[JPT][hapmap]
rs10881647	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs10881664	0.87[CEU][hapmap];0.89[JPT][hapmap]
rs10881666	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.80[TSI][hapmap]
rs10881671	0.87[EUR][1000 genomes]
rs10881673	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10881674	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10881675	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10881677	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10881678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10881679	0.87[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs11185825	0.82[CEU][hapmap]
rs11185850	0.84[EUR][1000 genomes]
rs11185861	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11185880	0.84[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap]
rs11185882	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11185884	0.81[EUR][1000 genomes]
rs11185886	0.81[EUR][1000 genomes]
rs11185887	0.99[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs11185888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11185890	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11816741	0.88[CEU][hapmap]
rs12250365	0.88[CEU][hapmap]
rs12767644	0.88[CEU][hapmap]
rs1324699	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1324700	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1409318	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1409319	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1409358	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs1555868	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs17125278	0.81[CEU][hapmap]
rs1886997	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap]
rs1998644	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1998645	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2026550	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs2077946	0.82[CEU][hapmap];0.81[CHB][hapmap];0.89[MEX][hapmap]
rs2182396	0.87[CEU][hapmap];0.84[JPT][hapmap]
rs2419057	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2419085	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2900802	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2900813	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3740037	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap]
rs3758385	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs3824609	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs4274138	0.99[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs4934498	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934501	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934502	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4934503	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55772495	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61872460	0.81[EUR][1000 genomes]
rs6586218	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7076259	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7077349	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7081362	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7083066	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7085805	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7087240	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7087738	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7087789	0.82[CEU][hapmap]
rs7088104	0.82[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap]
rs7089473	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7092444	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs7095702	0.81[EUR][1000 genomes]
rs7095818	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs7096466	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs7097496	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7100603	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7100756	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs716781	0.82[CEU][hapmap];0.84[JPT][hapmap]
rs727427	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs735936	0.82[EUR][1000 genomes]
rs7894081	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7895379	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap]
rs7898670	0.87[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7902875	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7907852	0.82[CEU][hapmap];0.81[CHB][hapmap];0.81[CHD][hapmap]
rs7909550	0.87[CEU][hapmap];0.81[CHB][hapmap]
rs7912464	0.87[CEU][hapmap];0.88[JPT][hapmap]
rs7913109	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7924196	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8181361	0.87[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs8181406	0.88[CEU][hapmap];0.89[MEX][hapmap]
rs9325443	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs9325444	0.82[CEU][hapmap]
rs962524	0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[MEX][hapmap];0.80[TSI][hapmap]
rs9663129	0.88[CEU][hapmap]
rs9665314	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046241	chr10:91478562-91614437	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv869080	chr10:91498641-91712834	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS 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
3	nsv1036581	chr10:91526705-91691536	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1043571	chr10:91568555-92036154	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs913033	LINC00865	cis	Adipose Subcutaneous	GTEx
rs913033	MPHOSPH1	cis	multi-tissue	Pritchard
rs913033	RP11-248C1.3	cis	Artery Tibial	GTEx
rs913033	KIF20B	cis	cerebellum	SCAN
rs913033	KIF20B	cis	parietal	SCAN
rs913033	LINC00865	cis	Nerve Tibial	GTEx
rs913033	LINC00865	cis	Artery Tibial	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91568800-91569800	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr10:91569000-91573200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:91569000-91573400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr10:91569000-91573400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr10:91569000-91573400	Weak transcription	GM12878-XiMat	blood
6	chr10:91569000-91574200	Weak transcription	Fetal Muscle Leg	muscle
7	chr10:91569200-91571200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:91569600-91570800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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