Variant report

Variant	rs2498612
Chromosome Location	chr9:10254968-10254969
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10756012	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10756013	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10756014	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10756015	0.86[ASN][1000 genomes]
rs10756016	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10809046	0.83[ASN][1000 genomes]
rs10809047	0.86[ASN][1000 genomes]
rs10809049	0.87[ASN][1000 genomes]
rs10809052	0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs10958978	0.88[ASN][1000 genomes]
rs10958979	0.88[ASN][1000 genomes]
rs10958980	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10958991	0.89[EUR][1000 genomes]
rs12236963	0.87[ASN][1000 genomes]
rs12237121	0.86[ASN][1000 genomes]
rs12237243	0.87[ASN][1000 genomes]
rs12344061	0.86[ASN][1000 genomes]
rs1322144	0.86[ASN][1000 genomes]
rs1322147	0.92[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.82[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1322148	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1322153	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1923357	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2025152	0.81[JPT][hapmap]
rs2065071	0.86[ASN][1000 genomes]
rs2065072	0.88[ASN][1000 genomes]
rs2382197	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2475329	0.94[AFR][1000 genomes]
rs2475335	0.86[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.80[TSI][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2475339	0.83[EUR][1000 genomes]
rs2475349	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2498607	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2498610	0.96[YRI][hapmap];0.94[AFR][1000 genomes]
rs2498615	0.96[YRI][hapmap];0.93[AFR][1000 genomes]
rs4143458	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4143459	0.88[ASN][1000 genomes]
rs4487828	0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs4740445	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs4741020	0.89[CHB][hapmap];0.93[JPT][hapmap]
rs4741021	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4741022	0.87[ASN][1000 genomes]
rs4741024	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs62539728	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 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	nsv1033178	chr9:10169848-10428731	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv471280	chr9:10172572-10277602	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv466158	chr9:10172573-10277602	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv613375	chr9:10172573-10277602	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv2758179	chr9:10188450-10370398	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv2759666	chr9:10188450-10370398	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv892310	chr9:10197122-10279606	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1034040	chr9:10225500-10255910	Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv892311	chr9:10226620-10265282	Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv892312	chr9:10231178-10279606	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv2753898	chr9:10251400-10276700	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	esv2762791	chr9:10253852-10325264	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1018748	chr9:10254793-10325252	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10254400-10255000	Enhancers	Fetal Lung	lung
2	chr9:10254400-10255200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:10254600-10255200	Enhancers	Stomach Mucosa	stomach
4	chr9:10254600-10255400	Enhancers	Fetal Heart	heart
5	chr9:10254800-10255000	Enhancers	Fetal Brain Male	brain

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