Variant report

Variant	rs9938830
Chromosome Location	chr16:82221322-82221323
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:82207842..82210813-chr16:82220344..82222897,2	MCF-7	breast:
2	chr16:82215365..82217939-chr16:82221171..82222891,2	MCF-7	breast:

Extended variants
information (count: 82 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1056675	0.80[JPT][hapmap]
rs10871424	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10871425	0.96[ASN][1000 genomes]
rs12446210	0.81[JPT][hapmap]
rs12447195	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12598637	0.80[JPT][hapmap]
rs1424155	0.85[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs1424156	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1559425	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1559426	0.85[ASN][1000 genomes]
rs17232243	0.80[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17232307	0.83[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17232342	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1862820	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1987155	0.87[ASN][1000 genomes]
rs2303266	0.84[JPT][hapmap]
rs2911378	0.83[ASN][1000 genomes]
rs2911379	0.84[ASN][1000 genomes]
rs2911380	0.82[ASN][1000 genomes]
rs2911381	0.84[ASN][1000 genomes]
rs2911382	0.84[ASN][1000 genomes]
rs2911383	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2911385	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2911386	0.84[ASN][1000 genomes]
rs2911388	0.85[ASN][1000 genomes]
rs2911389	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2911391	0.84[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2911392	0.85[ASN][1000 genomes]
rs2911393	0.85[ASN][1000 genomes]
rs2911394	0.85[ASN][1000 genomes]
rs2911395	0.85[ASN][1000 genomes]
rs2911396	0.82[ASN][1000 genomes]
rs2911397	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2911398	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2911399	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2911400	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2911401	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2911403	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2911404	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2911409	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2967365	0.84[ASN][1000 genomes]
rs2967366	0.84[ASN][1000 genomes]
rs2967367	0.84[ASN][1000 genomes]
rs2967369	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2967370	0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2967371	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2967376	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2967378	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2967379	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2967380	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2967381	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2967382	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3829545	1.00[JPT][hapmap]
rs3829546	0.83[ASN][1000 genomes]
rs3829547	0.84[ASN][1000 genomes]
rs3829549	0.84[ASN][1000 genomes]
rs3829550	0.84[ASN][1000 genomes]
rs3898333	0.86[ASN][1000 genomes]
rs4889476	0.80[JPT][hapmap]
rs4999637	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56116174	0.83[ASN][1000 genomes]
rs60960296	0.87[ASN][1000 genomes]
rs7205347	0.84[ASN][1000 genomes]
rs918759	0.84[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs918760	0.84[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs918761	0.96[ASN][1000 genomes]
rs918763	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs959837	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs959838	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs978970	0.85[ASN][1000 genomes]
rs978971	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532598	chr16:82034475-82738733	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv532599	chr16:82074439-82926863	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
3	nsv573367	chr16:82140561-83040846	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	nsv525467	chr16:82154619-82223485	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv518129	chr16:82188173-82228076	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv833302	chr16:82188351-82363863	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	esv1844598	chr16:82195234-82429790	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	esv1847414	chr16:82195234-82429790	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv532600	chr16:82197554-82314289	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	nsv907015	chr16:82203758-82284056	Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv1065896	chr16:82213517-82731994	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9938830	MPHOSPH6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:82219200-82223000	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr16:82219400-82223000	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr16:82221000-82222000	Enhancers	GM12878-XiMat	blood
4	chr16:82221200-82222200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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