Variant report

Variant	rs10163172
Chromosome Location	chr15:73808602-73808603
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NPTN-1	chr15:73807066-73809830	ucscGeneNc_uc002bay_1

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10162605	0.96[EUR][1000 genomes]
rs11633159	1.00[JPT][hapmap]
rs11638472	0.93[EUR][1000 genomes]
rs11854774	0.86[EUR][1000 genomes]
rs11856313	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs12324832	0.86[EUR][1000 genomes]
rs12908815	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13380155	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13380245	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1481087	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs1582742	0.91[EUR][1000 genomes]
rs16957919	0.91[EUR][1000 genomes]
rs16957997	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs16958019	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs16958025	0.86[EUR][1000 genomes]
rs16958041	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs16958050	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs2306462	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs2415153	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs28834466	0.86[EUR][1000 genomes]
rs3889590	0.93[EUR][1000 genomes]
rs55636021	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55695286	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56190024	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56227598	0.93[EUR][1000 genomes]
rs57995256	0.86[EUR][1000 genomes]
rs60419012	0.86[EUR][1000 genomes]
rs6495066	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7163212	0.86[EUR][1000 genomes]
rs7163693	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7164953	0.86[EUR][1000 genomes]
rs7165447	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7166673	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs7169976	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7172130	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7172448	0.82[EUR][1000 genomes]
rs7173068	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7176074	0.83[AFR][1000 genomes]
rs7176452	0.84[EUR][1000 genomes]
rs7177731	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs7178806	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs729155	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs8027255	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8028749	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs8033242	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs8036438	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs8039862	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs8040552	0.95[EUR][1000 genomes]

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	nsv1037540	chr15:73712637-73982420	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv525433	chr15:73766072-73833600	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv904344	chr15:73800519-73864831	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73805600-73809200	Weak transcription	Right Atrium	heart
2	chr15:73807000-73809200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr15:73807000-73809400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:73807000-73809600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr15:73807400-73809800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr15:73807400-73809800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr15:73807600-73809800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:73807800-73810200	Enhancers	Fetal Heart	heart
9	chr15:73808200-73809800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr15:73808200-73810200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:73808200-73847400	Weak transcription	Left Ventricle	heart
12	chr15:73808400-73810000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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