Variant report

Variant	rs1359082
Chromosome Location	chr12:10163375-10163376
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CLEC9A-2	chr12:10163358-10163449	NONHSAT026859

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

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

rs_ID	r²[population]
rs10400568	0.97[ASN][1000 genomes]
rs10466840	0.90[ASN][1000 genomes]
rs1075996	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772225	0.81[EUR][1000 genomes]
rs1807355	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868211	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1868212	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4764182	0.88[ASN][1000 genomes]
rs4764183	0.88[ASN][1000 genomes]
rs4764184	0.89[ASN][1000 genomes]
rs4764185	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4764186	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4764188	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs494312	0.80[AMR][1000 genomes]
rs620449	0.82[ASN][1000 genomes]
rs7133001	1.00[JPT][hapmap]
rs7134176	0.97[ASN][1000 genomes]
rs7134681	0.97[ASN][1000 genomes]
rs7305054	0.97[ASN][1000 genomes]
rs7305223	0.97[ASN][1000 genomes]
rs7954941	0.97[ASN][1000 genomes]
rs7960202	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7970682	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[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	nsv898755	chr12:10069302-10186284	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1043125	chr12:10121288-10177037	Active TSS Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1042106	chr12:10121288-10177636	Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1040610	chr12:10121288-10179374	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv898756	chr12:10142538-10174314	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10156200-10165200	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr12:10162400-10163800	Enhancers	HUVEC	blood vessel
3	chr12:10162800-10163600	Enhancers	Brain Substantia Nigra	brain
4	chr12:10163000-10163600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr12:10163000-10163800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr12:10163000-10165400	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr12:10163200-10163400	Enhancers	Brain Anterior Caudate	brain
8	chr12:10163200-10165000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr12:10163200-10165200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr12:10163200-10170200	Strong transcription	Monocytes-CD14+_RO01746	blood

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