Variant report

Variant	rs560445421
Chromosome Location	chr5:92924853-92924854
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SUZ12	chr5:92923245-92925427	H1-hESC	embryonic stem cell:	n/a	n/a
2	SUZ12	chr5:92922767-92925376	NT2-D1	testis:	n/a	n/a
3	CHD1	chr5:92912776-92927520	IMR90	lung:	n/a	chr5:92914877-92914887 chr5:92926304-92926314 chr5:92917311-92917321 chr5:92918655-92918665 chr5:92918684-92918694 chr5:92920697-92920707 chr5:92920384-92920394 chr5:92915468-92915478 chr5:92917327-92917337 chr5:92920376-92920386
4	MXI1	chr5:92922722-92925132	IMR90	lung:	n/a	n/a
5	POLR2A	chr5:92924657-92925465	HepG2	liver:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM172A-2	chr5:92924826-92924925	ucscGeneNc_uc003kkg_2

Variant related genes	Relation type
NR2F1-AS1	TF binding region
NR2F1	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3451945	chr5:92858750-93024740	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv830404	chr5:92868336-93048257	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	esv1819334	chr5:92892591-92956733	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv882383	chr5:92895401-92928346	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv823130	chr5:92896346-92966016	Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv4918	chr5:92898426-92943359	Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv823132	chr5:92898512-92969668	Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	esv1794960	chr5:92919821-92932305	Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	esv1837322	chr5:92919821-92933747	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv3350173	chr5:92923496-92925444	Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:92914000-92925800	Active TSS	Brain Angular Gyrus	brain
2	chr5:92914200-92926200	Active TSS	Fetal Brain Female	brain
3	chr5:92914800-92926000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
4	chr5:92916200-92927600	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr5:92916400-92925200	Active TSS	Brain Substantia Nigra	brain
6	chr5:92918000-92925000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:92919800-92925400	Active TSS	Brain Germinal Matrix	brain
8	chr5:92920800-92929400	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:92921000-92925400	Bivalent/Poised TSS	Fetal Lung	lung
10	chr5:92921000-92927800	Transcr. at gene 5' and 3'	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:92922000-92925000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
12	chr5:92922200-92931400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr5:92922200-92934200	Weak transcription	HSMMtube	muscle
14	chr5:92922600-92929200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr5:92922800-92925000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
16	chr5:92922800-92925000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
17	chr5:92922800-92927000	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
18	chr5:92922800-92927800	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr5:92922800-92929800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr5:92923400-92925000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
21	chr5:92923400-92928000	Transcr. at gene 5' and 3'	NHLF	lung
22	chr5:92923600-92925200	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
23	chr5:92923600-92925400	Transcr. at gene 5' and 3'	Ovary	ovary
24	chr5:92924000-92926000	Active TSS	Brain Anterior Caudate	brain
25	chr5:92924200-92925000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr5:92924200-92926800	Weak transcription	Liver	Liver
27	chr5:92924200-92929400	Weak transcription	HMEC	breast
28	chr5:92924200-92935000	Weak transcription	Gastric	stomach
29	chr5:92924400-92929800	Weak transcription	NHDF-Ad	bronchial
30	chr5:92924600-92925000	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum
31	chr5:92924600-92925000	Weak transcription	HSMM	muscle
32	chr5:92924600-92925000	Transcr. at gene 5' and 3'	NH-A	brain
33	chr5:92924600-92925200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr5:92924600-92925200	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr5:92924600-92925400	Transcr. at gene 5' and 3'	HepG2	liver
36	chr5:92924600-92926000	Weak transcription	Brain Cingulate Gyrus	brain
37	chr5:92924600-92926000	Transcr. at gene 5' and 3'	Fetal Adrenal Gland	Adrenal Gland
38	chr5:92924600-92926200	Transcr. at gene 5' and 3'	Fetal Stomach	stomach
39	chr5:92924600-92926400	Active TSS	Stomach Smooth Muscle	stomach
40	chr5:92924600-92927000	Enhancers	HUVEC	blood vessel
41	chr5:92924600-92927600	Transcr. at gene 5' and 3'	Fetal Kidney	kidney
42	chr5:92924600-92928600	Weak transcription	Adipose Nuclei	Adipose
43	chr5:92924600-92930600	Weak transcription	Pancreas	Pancrea
44	chr5:92924800-92925000	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr5:92924800-92925000	Active TSS	Hela-S3	cervix
46	chr5:92924800-92925200	Genic enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr5:92924800-92925600	Active TSS	Fetal Brain Male	brain
48	chr5:92924800-92925800	Weak transcription	Right Atrium	heart
49	chr5:92924800-92926400	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr5:92924800-92929400	Weak transcription	Osteobl	bone

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