Variant report

Variant	rs542450998
Chromosome Location	chr10:43674977-43674978
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CSGALNACT2-1	chr10:43674865-43675814	NONHSAT012944

Extended variants
information (count: 9 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534548	chr10:42890664-43729688	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv430159	chr10:43291894-43946294	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv895082	chr10:43530071-43755506	Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv895083	chr10:43549708-43765485	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv916378	chr10:43622151-43868356	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	nsv1042310	chr10:43623060-43688505	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking 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	7 gene(s)	inside rSNPs	diseases
7	nsv1043661	chr10:43626619-43890162	Bivalent Enhancer Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv540574	chr10:43626619-43890162	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
9	esv1831010	chr10:43674916-43759185	Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43635600-43689000	Weak transcription	Esophagus	oesophagus
2	chr10:43652600-43697200	Weak transcription	Pancreas	Pancrea
3	chr10:43654600-43678000	Weak transcription	Hela-S3	cervix
4	chr10:43655000-43680600	Weak transcription	Colonic Mucosa	Colon
5	chr10:43658800-43690600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr10:43660400-43687400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:43662000-43677000	Strong transcription	Osteobl	bone
8	chr10:43662200-43684400	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr10:43662200-43697600	Weak transcription	NHEK	skin
10	chr10:43662600-43690000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr10:43662800-43681600	Weak transcription	HMEC	breast
12	chr10:43663000-43678000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr10:43663600-43679800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:43663600-43683800	Strong transcription	Fetal Thymus	thymus
15	chr10:43664000-43679600	Strong transcription	Fetal Muscle Trunk	muscle
16	chr10:43664000-43680400	Strong transcription	Dnd41	blood
17	chr10:43664200-43676800	Strong transcription	HSMMtube	muscle
18	chr10:43664400-43675600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr10:43664800-43675000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr10:43665200-43680000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr10:43665400-43679400	Strong transcription	Thymus	Thymus
22	chr10:43665400-43679800	Strong transcription	Adipose Nuclei	Adipose
23	chr10:43667400-43679400	Strong transcription	Stomach Smooth Muscle	stomach
24	chr10:43667600-43675000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr10:43667600-43679200	Strong transcription	Muscle Satellite Cultured Cells	--
26	chr10:43667800-43685200	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr10:43667800-43692800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr10:43668000-43685200	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr10:43668200-43694000	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr10:43668600-43675000	Weak transcription	Brain Substantia Nigra	brain
31	chr10:43668600-43683800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr10:43668600-43683800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:43668800-43680200	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr10:43668800-43684400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr10:43669000-43677400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr10:43669000-43677600	Weak transcription	Brain Anterior Caudate	brain
37	chr10:43669000-43684200	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr10:43669200-43678800	Weak transcription	HepG2	liver
39	chr10:43669400-43677000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr10:43669600-43676400	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr10:43669600-43679000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr10:43669600-43689400	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr10:43669800-43683000	Strong transcription	Fetal Brain Female	brain
44	chr10:43670000-43680000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr10:43670400-43676400	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr10:43670800-43676800	Strong transcription	Ovary	ovary
47	chr10:43670800-43679400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr10:43671000-43689800	Weak transcription	Gastric	stomach
49	chr10:43671200-43676200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr10:43671200-43678200	Weak transcription	Fetal Heart	heart

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