Variant report

Variant	rs10065640
Chromosome Location	chr5:59821598-59821599
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDE4D-1	chr5:59817878-59822213	XLOC_004839
2	lnc-AC109486.1-1	chr5:59816847-59822245	NONHSAT101638
3	lnc-AC109486.1-1	chr5:59819609-59822275	NONHSAT101640
4	lnc-AC109486.1-1	chr5:59816847-59822245	ENSG00000152931.7

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10036678	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10044835	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10074908	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10075757	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10078847	0.82[AFR][1000 genomes]
rs1379112	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs16878206	0.92[ASN][1000 genomes]
rs16878207	0.92[ASN][1000 genomes]
rs3857235	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4081739	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4133470	1.00[JPT][hapmap]
rs6449475	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6891919	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6898521	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093136	0.82[ASN][1000 genomes]
rs7712091	0.92[ASN][1000 genomes]
rs7712117	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7723306	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7724442	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7727343	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7729652	0.82[ASN][1000 genomes]
rs7729781	0.82[ASN][1000 genomes]
rs9291692	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1018614	chr5:59708223-59910308	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv881711	chr5:59724947-59890278	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv598297	chr5:59734004-59862453	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59812800-59822400	Weak transcription	Brain Angular Gyrus	brain
2	chr5:59817000-59822000	Weak transcription	Fetal Thymus	thymus
3	chr5:59817400-59822000	Weak transcription	Brain Substantia Nigra	brain
4	chr5:59817800-59829000	Weak transcription	Aorta	Aorta
5	chr5:59818000-59822000	Weak transcription	Dnd41	blood
6	chr5:59818000-59822400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:59818000-59822400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:59818400-59822600	Weak transcription	Brain Hippocampus Middle	brain
9	chr5:59818600-59821600	Weak transcription	Primary T cells from cord blood	blood
10	chr5:59819200-59822000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr5:59819600-59822000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr5:59819600-59824800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr5:59819600-59825000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr5:59820000-59825000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr5:59820200-59822000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:59820200-59824600	Weak transcription	Primary B cells from cord blood	blood

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