Variant report

Variant	rs6929515
Chromosome Location	chr6:73629543-73629544
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10805969	0.84[CHB][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11756197	0.82[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1316784	1.00[CEU][hapmap];0.85[CHB][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1342337	0.95[CEU][hapmap];0.85[CHB][hapmap];0.85[CHD][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17800259	0.89[CHB][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1891396	0.87[CHD][hapmap]
rs1935526	0.89[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1935527	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2882328	0.89[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3005769	0.84[CHD][hapmap]
rs3763159	0.86[CHD][hapmap]
rs4388257	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4552693	0.95[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6908756	0.88[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6909147	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6909225	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6909241	0.89[CHB][hapmap];0.88[JPT][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6913925	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6915633	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6916116	0.87[LWK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6924175	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6924280	0.89[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6930157	0.89[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap];0.85[TSI][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs71573567	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7740837	0.95[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9341390	0.95[CEU][hapmap];0.85[CHB][hapmap];0.84[CHD][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9342986	0.91[CEU][hapmap];0.94[CHB][hapmap];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9342987	0.95[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9351950	0.84[CHD][hapmap]
rs9351951	0.84[CHD][hapmap]
rs9351954	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9351955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9351956	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9360610	0.89[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.94[JPT][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9360611	0.89[CHB][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9360612	0.89[CHB][hapmap];0.88[JPT][hapmap];0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9360614	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9360616	0.83[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9360617	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9360618	0.95[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9360619	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830691	chr6:73530978-73743648	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv886155	chr6:73551937-73649330	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6929515	SMAP1	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73607600-73715400	Weak transcription	Primary B cells from cord blood	blood
2	chr6:73624600-73637200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:73624600-73641400	Weak transcription	Psoas Muscle	Psoas
4	chr6:73624600-73658600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr6:73627800-73634000	Weak transcription	Fetal Heart	heart

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