Variant report

Variant	rs12665271
Chromosome Location	chr6:1952118-1952119
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1948965..1951899-chr6:1951907..1953697,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf195-29	chr6:1952058-1952398	NONHSAT106571

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

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs2274023	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs2628457	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs3734743	1.00[EUR][1000 genomes]
rs3800082	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv931941	chr6:1768439-2246781	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
5	nsv1032149	chr6:1848148-2006021	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1032727	chr6:1900622-2064690	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv538095	chr6:1900622-2064690	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv883386	chr6:1910108-2122454	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1905000-1970600	Weak transcription	Spleen	Spleen
2	chr6:1905400-1962000	Weak transcription	Pancreas	Pancrea
3	chr6:1910200-1965800	Weak transcription	Small Intestine	intestine
4	chr6:1915800-1972800	Weak transcription	Colonic Mucosa	Colon
5	chr6:1916000-1960800	Weak transcription	Gastric	stomach
6	chr6:1918600-1957800	Weak transcription	Dnd41	blood
7	chr6:1919600-1962400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:1924000-1952800	Weak transcription	Fetal Stomach	stomach
9	chr6:1930600-1952600	Weak transcription	Fetal Intestine Large	intestine
10	chr6:1935200-1952200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:1935200-1953800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr6:1935400-1953000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:1935800-1964200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr6:1936400-1960000	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:1936800-1958400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr6:1937400-1961400	Weak transcription	Stomach Mucosa	stomach
17	chr6:1938200-1958400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:1940800-1967200	Weak transcription	Primary B cells from cord blood	blood
19	chr6:1940800-1969800	Weak transcription	Lung	lung
20	chr6:1941000-1952600	Weak transcription	Hela-S3	cervix
21	chr6:1941400-1958400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:1942200-1952800	Weak transcription	Aorta	Aorta
23	chr6:1942400-1960800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr6:1943600-1966000	Weak transcription	GM12878-XiMat	blood
25	chr6:1944400-1964000	Weak transcription	Primary hematopoietic stem cells	blood
26	chr6:1945600-1961600	Strong transcription	HepG2	liver
27	chr6:1946000-1961000	Weak transcription	Left Ventricle	heart
28	chr6:1946000-1964000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:1946400-1953400	Strong transcription	Duodenum Mucosa	Duodenum
30	chr6:1947200-1952600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:1947400-1952600	Weak transcription	NHEK	skin
32	chr6:1947400-1980000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr6:1947800-1956000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr6:1949000-1958600	Weak transcription	Esophagus	oesophagus
35	chr6:1949800-1960600	Weak transcription	Primary T cells from cord blood	blood
36	chr6:1950000-1952600	Weak transcription	HMEC	breast
37	chr6:1950000-1952800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:1950000-1956400	Weak transcription	Brain Angular Gyrus	brain
39	chr6:1950200-1952200	Weak transcription	Osteobl	bone
40	chr6:1950200-1964200	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr6:1950200-1966400	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr6:1950400-1952600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:1950400-1952600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:1950600-1952200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr6:1950600-1952600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:1951200-1952600	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr6:1951200-1952800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr6:1951400-1972000	Weak transcription	Liver	Liver
49	chr6:1952000-1953400	Strong transcription	Fetal Intestine Small	intestine

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