Variant report

Variant	rs73046970
Chromosome Location	chr1:166134178-166134179
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMCO1-2	chr1:166134027-166134332	ENSG00000230898.1

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12406413	0.82[AFR][1000 genomes]
rs73034629	0.92[AFR][1000 genomes]
rs73034634	0.95[AFR][1000 genomes]
rs73034636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74118982	0.95[AFR][1000 genomes]
rs74118983	0.95[AFR][1000 genomes]
rs74118984	0.95[AFR][1000 genomes]
rs970519	0.95[AFR][1000 genomes]
rs987131	0.85[AFR][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	nsv916491	chr1:166000783-166948513	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	esv3332610	chr1:166111288-166282689	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:166132400-166135200	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr1:166133600-166134200	Weak transcription	Gastric	stomach
3	chr1:166133800-166134400	Bivalent/Poised TSS	Fetal Brain Female	brain
4	chr1:166133800-166135000	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr1:166133800-166136200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
6	chr1:166133800-166136600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
7	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
8	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
9	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
10	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr1:166134000-166134200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr1:166134000-166134200	Enhancers	Adipose Nuclei	Adipose
14	chr1:166134000-166134200	Flanking Active TSS	Brain Hippocampus Middle	brain
15	chr1:166134000-166134200	Flanking Active TSS	Brain Substantia Nigra	brain
16	chr1:166134000-166134200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
17	chr1:166134000-166134200	Flanking Bivalent TSS/Enh	Fetal Brain Male	brain
18	chr1:166134000-166134200	Bivalent Enhancer	Fetal Muscle Leg	muscle
19	chr1:166134000-166134200	Flanking Active TSS	Rectal Smooth Muscle	rectum
20	chr1:166134000-166134200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
21	chr1:166134000-166134200	Bivalent/Poised TSS	Stomach Mucosa	stomach
22	chr1:166134000-166134200	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr1:166134000-166134400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr1:166134000-166134400	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
25	chr1:166134000-166134400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr1:166134000-166134400	Enhancers	Liver	Liver
27	chr1:166134000-166134400	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
28	chr1:166134000-166134400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
29	chr1:166134000-166134400	Bivalent/Poised TSS	Fetal Intestine Large	intestine
30	chr1:166134000-166134400	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum
31	chr1:166134000-166134400	Active TSS	GM12878-XiMat	blood
32	chr1:166134000-166134400	Bivalent Enhancer	NH-A	brain
33	chr1:166134000-166134600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
34	chr1:166134000-166134600	Active TSS	Brain Cingulate Gyrus	brain
35	chr1:166134000-166134600	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
36	chr1:166134000-166134600	Active TSS	Right Ventricle	heart
37	chr1:166134000-166135000	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr1:166134000-166135000	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
39	chr1:166134000-166135000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
40	chr1:166134000-166135000	Active TSS	Right Atrium	heart
41	chr1:166134000-166135200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
42	chr1:166134000-166135400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
43	chr1:166134000-166135400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
44	chr1:166134000-166135600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
45	chr1:166134000-166135600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr1:166134000-166136600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
47	chr1:166134000-166136600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
48	chr1:166134000-166136600	Active TSS	Breast Myoepithelial Primary Cells	Breast
49	chr1:166134000-166136600	Active TSS	Brain Angular Gyrus	brain
50	chr1:166134000-166136600	Active TSS	Brain Anterior Caudate	brain

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