Variant report

Variant	rs62136542
Chromosome Location	chr2:39702065-39702066
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:39701139..39703920-chr2:39713857..39716222,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM178-1	chr2:39701668-39702476	NONHSAT070239
2	lnc-TMEM178-1	chr2:39701668-39702108	NONHSAT070244

Extended variants
information (count: 6 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56284069	1.00[AMR][1000 genomes]
rs62136497	0.91[EUR][1000 genomes]
rs62136499	1.00[AMR][1000 genomes]
rs62137262	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997934	chr2:39473548-39751029	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv833858	chr2:39684483-39856498	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39685200-39705000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr2:39688600-39703400	Weak transcription	Liver	Liver
3	chr2:39696200-39705000	Weak transcription	Aorta	Aorta
4	chr2:39696600-39711600	Weak transcription	Fetal Brain Female	brain
5	chr2:39697200-39704200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:39697200-39706800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr2:39697200-39707400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr2:39697200-39708600	Weak transcription	Stomach Mucosa	stomach
9	chr2:39697200-39709000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr2:39697200-39711200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr2:39697200-39711400	Weak transcription	Brain Angular Gyrus	brain
12	chr2:39697200-39711800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr2:39697200-39713200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr2:39697400-39702800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr2:39697400-39703000	Weak transcription	Stomach Smooth Muscle	stomach
16	chr2:39697400-39703200	Weak transcription	Left Ventricle	heart
17	chr2:39697400-39703600	Weak transcription	Fetal Intestine Large	intestine
18	chr2:39697400-39703800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr2:39697400-39704600	Weak transcription	Psoas Muscle	Psoas
20	chr2:39697400-39704800	Weak transcription	Placenta	Placenta
21	chr2:39697400-39704800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr2:39697400-39704800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr2:39697400-39705000	Weak transcription	Esophagus	oesophagus
24	chr2:39697400-39705000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr2:39697400-39705200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr2:39697400-39705200	Weak transcription	Ovary	ovary
27	chr2:39697400-39706600	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr2:39697400-39708600	Weak transcription	HSMM	muscle
29	chr2:39697400-39710400	Weak transcription	K562	blood
30	chr2:39697400-39710800	Weak transcription	Fetal Lung	lung
31	chr2:39697400-39711000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr2:39697400-39711200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr2:39697400-39715400	Weak transcription	Pancreas	Pancrea
34	chr2:39697400-39722000	Weak transcription	Fetal Stomach	stomach
35	chr2:39697400-39722000	Weak transcription	Right Ventricle	heart
36	chr2:39697400-39724200	Weak transcription	Gastric	stomach
37	chr2:39697600-39714600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr2:39697600-39714600	Weak transcription	Fetal Kidney	kidney
39	chr2:39697800-39703600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr2:39698000-39702600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr2:39698000-39704400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr2:39698000-39708200	Weak transcription	HUVEC	blood vessel
43	chr2:39698000-39708400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr2:39698000-39708600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr2:39698200-39703200	Weak transcription	Primary B cells from peripheral blood	blood
46	chr2:39698200-39703200	Weak transcription	Fetal Muscle Leg	muscle
47	chr2:39698200-39705000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr2:39698200-39705000	Weak transcription	Adipose Nuclei	Adipose
49	chr2:39698200-39706400	Weak transcription	Osteobl	bone
50	chr2:39698200-39708600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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