Variant report

Variant	rs1904217
Chromosome Location	chr8:114321829-114321830
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRPS1-4	chr8:114321434-114327022	NONHSAT128345

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10087093	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1017829	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap]
rs11778755	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.81[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap]
rs12675949	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.83[TSI][hapmap]
rs13249480	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs13270413	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.81[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap]
rs1351387	1.00[JPT][hapmap]
rs1351388	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1354445	0.81[ASN][1000 genomes]
rs1394268	0.81[ASN][1000 genomes]
rs1394269	0.81[ASN][1000 genomes]
rs1402943	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1478678	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.81[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap]
rs1480443	1.00[JPT][hapmap]
rs1480462	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1522057	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1522058	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1522064	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.89[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap]
rs1522065	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17605667	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17607120	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1827626	0.81[ASN][1000 genomes]
rs1904218	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.81[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2030507	1.00[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.89[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs2356050	1.00[CHB][hapmap]
rs2356203	1.00[ASW][hapmap];1.00[CHD][hapmap];0.84[LWK][hapmap];0.89[MKK][hapmap];0.80[TSI][hapmap];0.82[YRI][hapmap]
rs2356204	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2883875	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3853260	0.81[ASN][1000 genomes]
rs3853261	0.81[ASN][1000 genomes]
rs3853262	0.81[ASN][1000 genomes]
rs3912243	0.81[ASN][1000 genomes]
rs4242551	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs4437684	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4565484	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6469452	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6999828	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs750262	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7812971	1.00[JPT][hapmap]
rs7824290	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7825515	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7828518	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7833634	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7834106	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7835368	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7836578	1.00[ASW][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.89[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs7843570	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs899831	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.81[TSI][hapmap]
rs9642818	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9650051	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754581	chr8:114029421-114419106	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv916637	chr8:114116303-114338450	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1022803	chr8:114180224-114354093	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1904217	CSMD3	cis	cerebellum	SCAN
rs1904217	EIF3H	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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