Variant report

Variant	rs1685876
Chromosome Location	chr3:112459087-112459088
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD200R1L-1	chr3:112458541-112459858	XLOC_003218
2	lnc-CD200R1L-1	chr3:112458541-112459858	NR_110017

Extended variants
information (count: 13 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1685877	0.86[AFR][1000 genomes]
rs1706448	1.00[AFR][1000 genomes]
rs2688603	1.00[AFR][1000 genomes]
rs820549	0.81[AFR][1000 genomes]
rs820554	0.83[YRI][hapmap]
rs820558	0.91[YRI][hapmap]
rs820564	1.00[AFR][1000 genomes]
rs820565	1.00[AFR][1000 genomes]
rs820568	0.94[AFR][1000 genomes]
rs861046	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112452800-112461200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:112453000-112459800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:112453400-112461400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr3:112453600-112461400	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr3:112453800-112461000	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr3:112454200-112463800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:112454600-112461200	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr3:112454600-112461800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr3:112455400-112461000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr3:112455400-112461400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr3:112456400-112464000	Weak transcription	K562	blood
12	chr3:112456800-112459200	Enhancers	NHDF-Ad	bronchial
13	chr3:112457000-112459200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:112457200-112459600	Enhancers	Primary B cells from cord blood	blood
15	chr3:112457200-112459600	Enhancers	Primary T cells fromperipheralblood	blood
16	chr3:112457200-112461200	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr3:112457200-112461200	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr3:112458200-112459200	Enhancers	Primary B cells from peripheral blood	blood
19	chr3:112458200-112459200	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:112458200-112459200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
21	chr3:112458200-112459200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:112458200-112459200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:112458200-112459200	Enhancers	Fetal Thymus	thymus
24	chr3:112458200-112459400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:112458200-112459800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr3:112458200-112459800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
27	chr3:112458400-112459400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
28	chr3:112458400-112465600	Weak transcription	NHLF	lung
29	chr3:112458400-112467800	Weak transcription	Stomach Mucosa	stomach
30	chr3:112458600-112459200	Enhancers	Primary hematopoietic stem cells	blood
31	chr3:112458600-112461000	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr3:112458800-112459200	Enhancers	Sigmoid Colon	Sigmoid Colon
33	chr3:112458800-112460200	Enhancers	Placenta Amnion	Placenta Amnion
34	chr3:112458800-112467200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr3:112459000-112460600	Weak transcription	Osteobl	bone
36	chr3:112459000-112461200	Enhancers	Primary T cells from cord blood	blood
37	chr3:112459000-112461400	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr3:112459000-112463800	Weak transcription	Thymus	Thymus
39	chr3:112459000-112464000	Weak transcription	GM12878-XiMat	blood
40	chr3:112459000-112467000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:112459000-112470600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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