Variant report

Variant	rs11158490
Chromosome Location	chr14:63877170-63877171
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:63876148..63878726-chr14:63887830..63889791,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs7140704	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.92[TSI][hapmap];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7141605	0.88[CEU][hapmap]
rs7144210	0.94[CEU][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527251	chr14:63400786-64068806	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv520528	chr14:63400786-64157117	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv530774	chr14:63591348-64029881	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv915909	chr14:63620440-64560369	Active TSS Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
5	nsv832815	chr14:63750058-63913900	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv902018	chr14:63786658-63884984	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11158490	C14orf39	cis	cerebellum	SCAN

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:63837800-63902200	Weak transcription	Small Intestine	intestine
2	chr14:63843200-63898800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr14:63849000-63888000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr14:63851200-63886000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr14:63851200-63902400	Weak transcription	Right Ventricle	heart
6	chr14:63851200-63903600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr14:63851200-63922000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr14:63852400-63882200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr14:63852600-63899000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr14:63853200-63886600	Weak transcription	NH-A	brain
11	chr14:63854000-63893400	Weak transcription	Fetal Brain Male	brain
12	chr14:63854800-63922400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr14:63855000-63886000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr14:63856200-63883000	Weak transcription	K562	blood
15	chr14:63858000-63877400	Weak transcription	Esophagus	oesophagus
16	chr14:63858000-63880600	Weak transcription	Gastric	stomach
17	chr14:63858000-63890200	Weak transcription	Pancreas	Pancrea
18	chr14:63858400-63900000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr14:63858600-63891400	Weak transcription	Osteobl	bone
20	chr14:63859800-63878800	Weak transcription	HSMMtube	muscle
21	chr14:63859800-63901600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr14:63860000-63888000	Weak transcription	HUVEC	blood vessel
23	chr14:63860200-63880400	Weak transcription	Hela-S3	cervix
24	chr14:63860400-63877600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr14:63860400-63885600	Weak transcription	Fetal Intestine Small	intestine
26	chr14:63861800-63878800	Weak transcription	Placenta	Placenta
27	chr14:63862000-63877400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr14:63862000-63878000	Weak transcription	Fetal Muscle Leg	muscle
29	chr14:63862000-63878800	Weak transcription	Left Ventricle	heart
30	chr14:63862000-63879000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr14:63862000-63880000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr14:63862000-63880200	Weak transcription	NHEK	skin
33	chr14:63862000-63902200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr14:63862200-63897800	Weak transcription	Brain Cingulate Gyrus	brain
35	chr14:63862200-63902600	Weak transcription	Brain Angular Gyrus	brain
36	chr14:63862200-63903600	Weak transcription	HMEC	breast
37	chr14:63862400-63884800	Weak transcription	Adipose Nuclei	Adipose
38	chr14:63862400-63887800	Weak transcription	Thymus	Thymus
39	chr14:63862400-63894600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr14:63862600-63877200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr14:63862600-63880200	Weak transcription	Lung	lung
42	chr14:63863000-63879000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr14:63863800-63888000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr14:63864000-63878600	Weak transcription	Fetal Thymus	thymus
45	chr14:63864200-63877400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr14:63864200-63890200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr14:63865800-63887800	Weak transcription	Fetal Brain Female	brain
48	chr14:63866400-63877400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr14:63868800-63878800	Weak transcription	Stomach Smooth Muscle	stomach
50	chr14:63869000-63888800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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