Variant report

Variant	rs12278290
Chromosome Location	chr11:63418133-63418134
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:63417205..63419913-chr11:63437420..63439431,2	MCF-7	breast:
2	chr11:63417250..63419561-chr11:63424923..63427108,2	MCF-7	breast:
3	chr11:63415770..63418142-chr11:63506169..63508549,2	K562	blood:
4	chr11:63413938..63416131-chr11:63416938..63419102,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RTN3-1	chr11:63418032-63418219	ENSG00000256789.1

Variant related genes	Relation type
ENSG00000184743	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10082667	0.97[AFR][1000 genomes]
rs11231552	1.00[AFR][1000 genomes]
rs11231569	0.82[AFR][1000 genomes]
rs11231570	0.85[AFR][1000 genomes]
rs58198493	0.88[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	nsv1051171	chr11:62987064-63835715	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases
2	nsv353	chr11:63411216-63428498	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv832183	chr11:63416678-63564565	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:63391200-63418600	Weak transcription	Psoas Muscle	Psoas
2	chr11:63393800-63426600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr11:63395000-63426800	Strong transcription	Dnd41	blood
4	chr11:63395600-63421000	Strong transcription	Fetal Muscle Trunk	muscle
5	chr11:63397800-63430800	Weak transcription	Fetal Brain Male	brain
6	chr11:63398800-63420200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:63398800-63421400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:63398800-63426800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr11:63399000-63434000	Weak transcription	Small Intestine	intestine
10	chr11:63399200-63433800	Weak transcription	Fetal Heart	heart
11	chr11:63399800-63437800	Weak transcription	Fetal Brain Female	brain
12	chr11:63400400-63437600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr11:63400600-63431000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:63403400-63431000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr11:63403800-63427200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr11:63404000-63418800	Weak transcription	Gastric	stomach
17	chr11:63404000-63424400	Weak transcription	Esophagus	oesophagus
18	chr11:63407600-63419800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr11:63407800-63419200	Strong transcription	Placenta	Placenta
20	chr11:63407800-63421600	Strong transcription	Fetal Muscle Leg	muscle
21	chr11:63407800-63423400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr11:63407800-63426800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr11:63407800-63426800	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr11:63407800-63427400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr11:63408200-63419400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr11:63408200-63423400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr11:63408400-63419600	Strong transcription	A549	lung
28	chr11:63408400-63420000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr11:63408400-63421600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr11:63408400-63426800	Strong transcription	Hela-S3	cervix
31	chr11:63408600-63419600	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr11:63408800-63421200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr11:63409600-63425600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr11:63409800-63423600	Strong transcription	Liver	Liver
35	chr11:63410200-63425600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr11:63410800-63435000	Weak transcription	Stomach Mucosa	stomach
37	chr11:63411000-63435200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr11:63411000-63437800	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr11:63411200-63418200	Weak transcription	Colonic Mucosa	Colon
40	chr11:63411200-63418400	Weak transcription	Right Ventricle	heart
41	chr11:63411200-63418800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr11:63411200-63420000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr11:63411200-63424800	Weak transcription	Fetal Kidney	kidney
44	chr11:63411200-63437000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr11:63411400-63424400	Weak transcription	Brain Cingulate Gyrus	brain
46	chr11:63411800-63418200	Weak transcription	GM12878-XiMat	blood
47	chr11:63411800-63420200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr11:63411800-63430200	Weak transcription	Rectal Smooth Muscle	rectum
49	chr11:63412200-63419400	Strong transcription	Lung	lung
50	chr11:63413800-63418200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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