Variant report

Variant	rs9298651
Chromosome Location	chr9:10076276-10076277
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10119561	0.94[JPT][hapmap]
rs10122899	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs10511532	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10511533	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs10958865	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10958867	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10958877	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.85[MKK][hapmap];0.98[ASN][1000 genomes]
rs12237354	0.86[CHB][hapmap];0.93[JPT][hapmap]
rs12237805	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12238670	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs12551049	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs12552628	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12553705	0.86[EUR][1000 genomes]
rs12554153	1.00[CEU][hapmap]
rs12554847	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs1661048	0.94[JPT][hapmap]
rs16930975	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs16931013	1.00[CEU][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap]
rs16931018	1.00[CEU][hapmap];0.84[MEX][hapmap];0.85[TSI][hapmap]
rs16931082	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs16931103	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs1704030	0.94[JPT][hapmap]
rs1704031	0.94[JPT][hapmap]
rs17681526	0.83[EUR][1000 genomes]
rs1778516	0.94[JPT][hapmap]
rs291316	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs291318	0.85[CEU][hapmap]
rs367628	0.94[JPT][hapmap]
rs368297	0.93[JPT][hapmap]
rs373184	0.94[JPT][hapmap]
rs377907	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs396845	0.94[JPT][hapmap]
rs410553	0.94[JPT][hapmap]
rs414987	0.94[JPT][hapmap]
rs417403	0.94[JPT][hapmap]
rs417576	0.94[JPT][hapmap]
rs419387	0.94[JPT][hapmap]
rs426448	0.94[JPT][hapmap]
rs440764	0.94[JPT][hapmap]
rs443698	0.94[JPT][hapmap]
rs445608	0.87[CHB][hapmap];0.93[JPT][hapmap]
rs446874	0.94[JPT][hapmap]
rs449090	0.94[JPT][hapmap]
rs4741008	0.86[EUR][1000 genomes]
rs4741009	0.86[EUR][1000 genomes]
rs4741011	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs55637129	0.86[EUR][1000 genomes]
rs55737705	0.86[EUR][1000 genomes]
rs56051561	0.86[EUR][1000 genomes]
rs56266784	0.86[EUR][1000 genomes]
rs56283869	0.86[EUR][1000 genomes]
rs56322487	0.86[EUR][1000 genomes]
rs565315	0.87[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap]
rs59474508	0.86[EUR][1000 genomes]
rs60541640	0.86[EUR][1000 genomes]
rs7021364	0.94[JPT][hapmap]
rs72694816	0.86[EUR][1000 genomes]
rs72694817	0.94[EUR][1000 genomes]
rs72694835	0.86[EUR][1000 genomes]
rs72694837	0.86[EUR][1000 genomes]
rs72694841	0.86[EUR][1000 genomes]
rs72694842	0.86[EUR][1000 genomes]
rs72694844	0.86[EUR][1000 genomes]
rs72694861	0.86[EUR][1000 genomes]
rs72694862	0.86[EUR][1000 genomes]
rs72694863	0.86[EUR][1000 genomes]
rs72694865	0.86[EUR][1000 genomes]
rs72694868	0.83[EUR][1000 genomes]
rs72694869	0.86[EUR][1000 genomes]
rs72694870	0.86[EUR][1000 genomes]
rs72694871	0.86[EUR][1000 genomes]
rs72694872	0.86[EUR][1000 genomes]
rs72694873	0.86[EUR][1000 genomes]
rs72694879	0.86[EUR][1000 genomes]
rs72694880	0.86[EUR][1000 genomes]
rs72694881	0.86[EUR][1000 genomes]
rs72694882	0.86[EUR][1000 genomes]
rs72694883	0.86[EUR][1000 genomes]
rs72694884	0.86[EUR][1000 genomes]
rs72694888	0.86[EUR][1000 genomes]
rs72694889	0.86[EUR][1000 genomes]
rs72694890	0.83[EUR][1000 genomes]
rs72694891	0.83[EUR][1000 genomes]
rs72694892	0.83[EUR][1000 genomes]
rs72694893	0.83[EUR][1000 genomes]
rs72694895	0.83[EUR][1000 genomes]
rs72694898	0.83[EUR][1000 genomes]
rs832241	0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034731	chr9:9776126-10481262	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892295	chr9:9832245-10380406	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1021380	chr9:9943339-10126281	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv539989	chr9:9943339-10126281	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv892301	chr9:9971050-10144584	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv892302	chr9:9974221-10158866	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv466155	chr9:9989765-10091133	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv613370	chr9:9989765-10091133	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1030657	chr9:10002355-10481262	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv831506	chr9:10040172-10204609	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv892303	chr9:10054994-10099327	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv824850	chr9:10058091-10134157	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv892304	chr9:10061872-10119157	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv892305	chr9:10061872-10123735	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv613371	chr9:10075721-10101169	Enhancers ZNF genes & repeats Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs9298651	BTG2	trans	brain	seeQTL
rs9298651	CCL3L1	trans	brain	seeQTL
rs9298651	ZNF331	trans	brain	seeQTL
rs9298651	ARC	trans	brain	seeQTL
rs9298651	FOSB	trans	brain	seeQTL
rs9298651	NPAS4	trans	brain	seeQTL
rs9298651	EGR1	trans	brain	seeQTL
rs9298651	FOS	trans	brain	seeQTL
rs9298651	CCL4	trans	brain	seeQTL
rs9298651	CCL3	trans	brain	seeQTL
rs9298651	EGR4	trans	brain	seeQTL
rs9298651	KLF6	trans	brain	seeQTL
rs9298651	EGR2	trans	brain	seeQTL
rs9298651	PTGS2	trans	brain	seeQTL

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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