Variant report

Variant	rs33079
Chromosome Location	chr2:231374618-231374619
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SP110-8	chr2:231374568-231375054	NONHSAT077293

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1102957	0.94[EUR][1000 genomes]
rs1104327	0.95[EUR][1000 genomes]
rs13000851	0.95[EUR][1000 genomes]
rs1649876	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1649902	0.83[EUR][1000 genomes]
rs1649906	0.95[EUR][1000 genomes]
rs1649907	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1649908	0.95[EUR][1000 genomes]
rs1649909	0.92[EUR][1000 genomes]
rs1649910	0.85[EUR][1000 genomes]
rs1649921	0.87[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1649925	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1678151	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1678187	0.95[EUR][1000 genomes]
rs1678189	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678190	0.86[EUR][1000 genomes]
rs1678199	0.96[EUR][1000 genomes]
rs1678205	0.87[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1678210	0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1678211	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2195196	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2434050	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs33078	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4973324	0.95[EUR][1000 genomes]
rs4973325	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62193433	0.83[ASN][1000 genomes]
rs62195461	0.95[EUR][1000 genomes]
rs6436942	0.88[EUR][1000 genomes]
rs6436944	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6436945	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.95[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6717269	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6724975	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6740016	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs699660	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs699661	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs836232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs836236	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs836237	0.95[EUR][1000 genomes]
rs836238	0.95[EUR][1000 genomes]
rs836239	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs890668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	esv18000	chr2:231072978-231467847	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:231336800-231376000	Weak transcription	Colonic Mucosa	Colon
2	chr2:231338400-231376200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr2:231352600-231376800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr2:231355200-231380400	Strong transcription	Adipose Nuclei	Adipose
5	chr2:231355600-231378600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr2:231355800-231381400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:231356400-231377000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:231357200-231377800	Weak transcription	Stomach Mucosa	stomach
9	chr2:231358400-231376600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr2:231358600-231377400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr2:231359600-231380400	Weak transcription	Brain Hippocampus Middle	brain
12	chr2:231361800-231381400	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr2:231362000-231376600	Strong transcription	Primary T helper cells PMA-I stimulated	--
14	chr2:231362000-231376600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr2:231362200-231374800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr2:231362200-231378600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr2:231362400-231378400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr2:231362400-231378600	Strong transcription	Primary T cells from cord blood	blood
19	chr2:231362600-231378600	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr2:231362600-231380600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr2:231362800-231376600	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr2:231363000-231376600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr2:231363400-231377000	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr2:231363800-231380200	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr2:231364200-231381000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr2:231364600-231385800	Weak transcription	HSMMtube	muscle
27	chr2:231364800-231377200	Weak transcription	Fetal Intestine Large	intestine
28	chr2:231365400-231377600	Weak transcription	Fetal Intestine Small	intestine
29	chr2:231365600-231376000	Weak transcription	Fetal Stomach	stomach
30	chr2:231365600-231377200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr2:231366600-231385200	Weak transcription	HMEC	breast
32	chr2:231366800-231379800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr2:231367000-231378600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr2:231367200-231376600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr2:231368400-231378000	Strong transcription	Spleen	Spleen
36	chr2:231369200-231377600	Weak transcription	Small Intestine	intestine
37	chr2:231370000-231375600	Weak transcription	NHDF-Ad	bronchial
38	chr2:231370800-231389600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr2:231371000-231376600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
40	chr2:231371000-231409800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr2:231371200-231377600	Weak transcription	NH-A	brain
42	chr2:231371200-231384600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr2:231372000-231375000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr2:231372000-231375400	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr2:231372000-231376000	Strong transcription	Primary B cells from cord blood	blood
46	chr2:231372000-231377600	Weak transcription	Pancreas	Pancrea
47	chr2:231372000-231384600	Weak transcription	Placenta	Placenta
48	chr2:231372400-231376200	Strong transcription	Primary B cells from peripheral blood	blood
49	chr2:231372400-231379200	Weak transcription	Rectal Smooth Muscle	rectum
50	chr2:231372400-231386200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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