Variant report

Variant	rs13072567
Chromosome Location	chr3:112051427-112051428
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr3:112051331-112054778	H1-neurons	neurons:	n/a	chr3:112052555-112052568

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD200-1	chr3:112051033-112051638	ENSG00000239482

Variant related genes	Relation type
CD200	TF binding region

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10511311	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12491166	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13092081	0.82[AMR][1000 genomes]
rs13095299	0.82[AMR][1000 genomes]
rs13098589	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1343852	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2272022	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2276772	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2399412	0.87[AMR][1000 genomes]
rs2399416	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34345145	0.92[EUR][1000 genomes]
rs4682399	0.87[AMR][1000 genomes]
rs7647411	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112046600-112051600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:112048600-112051600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:112050600-112054200	Active TSS	Breast Myoepithelial Primary Cells	Breast
4	chr3:112050800-112051600	Enhancers	Primary B cells from peripheral blood	blood
5	chr3:112050800-112051600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:112050800-112051800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:112050800-112054200	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr3:112051000-112051600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:112051000-112051600	Enhancers	Primary B cells from cord blood	blood
10	chr3:112051000-112051600	Enhancers	Fetal Brain Male	brain
11	chr3:112051000-112053600	Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr3:112051000-112053800	Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr3:112051000-112054000	Active TSS	ES-I3 Cell Line	embryonic stem cell
14	chr3:112051000-112054200	Active TSS	Placenta	Placenta
15	chr3:112051200-112051600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr3:112051200-112051800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:112051400-112051600	Flanking Active TSS	Primary hematopoietic stem cells	blood
18	chr3:112051400-112051600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
19	chr3:112051400-112051600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:112051400-112051600	Enhancers	Adipose Nuclei	Adipose
21	chr3:112051400-112051600	Enhancers	Brain Hippocampus Middle	brain
22	chr3:112051400-112051600	Enhancers	Fetal Lung	lung
23	chr3:112051400-112051600	Weak transcription	Left Ventricle	heart
24	chr3:112051400-112051600	Enhancers	NH-A	brain
25	chr3:112051400-112051800	Flanking Active TSS	Primary T cells from cord blood	blood
26	chr3:112051400-112051800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr3:112051400-112052000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr3:112051400-112052000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:112051400-112053400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr3:112051400-112053600	Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr3:112051400-112053600	Active TSS	HUES64 Cell Line	embryonic stem cell
32	chr3:112051400-112053600	Active TSS	iPS-15b Cell Line	embryonic stem cell
33	chr3:112051400-112054200	Active TSS	Fetal Brain Female	brain
34	chr3:112051400-112054200	Active TSS	Rectal Mucosa Donor 29	rectum
35	chr3:112051400-112054400	Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr3:112051400-112054400	Active TSS	GM12878-XiMat	blood
37	chr3:112051400-112054600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

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