Variant report

Variant	rs565960
Chromosome Location	chr1:175850823-175850824
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RFWD2-4	chr1:175850681-175850966	NONHSAT007762

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12034224	0.97[EUR][1000 genomes]
rs12071278	0.99[EUR][1000 genomes]
rs12402057	0.99[EUR][1000 genomes]
rs12406224	0.99[EUR][1000 genomes]
rs1570926	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs41266106	0.82[EUR][1000 genomes]
rs4652134	0.98[EUR][1000 genomes]
rs4652135	0.98[EUR][1000 genomes]
rs519424	0.89[ASN][1000 genomes]
rs532799	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33328	chr1:175446583-175910001	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv872560	chr1:175648631-175869554	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175843000-175855000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:175847600-175857000	Weak transcription	Fetal Lung	lung
3	chr1:175848000-175853400	Weak transcription	Lung	lung
4	chr1:175848200-175853400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr1:175848200-175856800	Weak transcription	Adipose Nuclei	Adipose
6	chr1:175848400-175853600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr1:175848400-175862600	Weak transcription	Fetal Intestine Small	intestine
8	chr1:175848800-175853200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:175849400-175851200	Enhancers	Fetal Brain Female	brain
10	chr1:175849600-175851200	Enhancers	Fetal Brain Male	brain
11	chr1:175849800-175851600	Enhancers	Fetal Thymus	thymus
12	chr1:175849800-175851800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr1:175850000-175851200	Enhancers	Dnd41	blood
14	chr1:175850000-175852600	Weak transcription	Aorta	Aorta
15	chr1:175850200-175851000	Enhancers	Brain Germinal Matrix	brain
16	chr1:175850400-175851000	Enhancers	Placenta Amnion	Placenta Amnion
17	chr1:175850400-175851200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr1:175850400-175851200	Enhancers	Brain Substantia Nigra	brain
19	chr1:175850400-175851600	Enhancers	Brain Angular Gyrus	brain
20	chr1:175850400-175851800	Enhancers	Brain Hippocampus Middle	brain
21	chr1:175850600-175851000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr1:175850600-175851000	Enhancers	Brain Inferior Temporal Lobe	brain
23	chr1:175850600-175851200	Enhancers	Thymus	Thymus
24	chr1:175850600-175851600	Enhancers	Brain Anterior Caudate	brain
25	chr1:175850800-175851000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr1:175850800-175851200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr1:175850800-175851800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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