Variant report

Variant	rs12340690
Chromosome Location	chr9:10165427-10165428
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10114268	0.88[AFR][1000 genomes]
rs10119369	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs10119561	1.00[CEU][hapmap]
rs10121068	1.00[CEU][hapmap]
rs10511530	1.00[CEU][hapmap]
rs10511535	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10958931	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs12235311	1.00[YRI][hapmap]
rs12344053	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs12346349	1.00[CEU][hapmap]
rs12349043	1.00[CEU][hapmap]
rs1661048	1.00[CEU][hapmap]
rs16931010	1.00[CEU][hapmap]
rs1704031	1.00[CEU][hapmap]
rs17680469	1.00[CEU][hapmap]
rs17680494	1.00[CEU][hapmap]
rs17680832	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs17681236	1.00[CEU][hapmap]
rs17693050	1.00[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1778516	1.00[CEU][hapmap]
rs367628	1.00[CEU][hapmap]
rs368297	1.00[CEU][hapmap]
rs373184	1.00[CEU][hapmap]
rs375665	1.00[CEU][hapmap]
rs395795	1.00[CEU][hapmap]
rs396845	1.00[CEU][hapmap]
rs414987	1.00[CEU][hapmap]
rs417403	1.00[CEU][hapmap]
rs417576	1.00[CEU][hapmap]
rs419387	1.00[CEU][hapmap]
rs426448	1.00[CEU][hapmap]
rs431894	1.00[CEU][hapmap]
rs440764	1.00[CEU][hapmap]
rs443698	1.00[CEU][hapmap]
rs445608	1.00[CEU][hapmap]
rs446874	1.00[CEU][hapmap]
rs4741017	1.00[ASN][1000 genomes]
rs56181952	1.00[ASN][1000 genomes]
rs59103364	1.00[ASN][1000 genomes]
rs67394918	0.81[AFR][1000 genomes]
rs73394271	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396361	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	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
4	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
5	nsv1024401	chr9:10105656-10218577	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv539995	chr9:10105656-10218577	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv466157	chr9:10119504-10170101	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	n/a	n/a	inside rSNPs	diseases
8	nsv613374	chr9:10119504-10170101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	n/a	n/a	inside rSNPs	diseases
9	nsv892308	chr9:10139580-10178560	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
10	nsv892309	chr9:10158866-10192290	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10164800-10166600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr9:10165400-10167800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:10165400-10173600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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